-- dump date 20140619_165539 -- class Genbank::misc_feature -- table misc_feature_note -- id note 28072000001 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 28072000002 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072000003 active site 28072000004 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 28072000005 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 28072000006 hypothetical protein; Provisional; Region: PRK09256 28072000007 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 28072000008 integron integrase; Region: integrase_gron; TIGR02249 28072000009 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072000010 active site 28072000011 catalytic residues [active] 28072000012 DNA binding site [nucleotide binding] 28072000013 Int/Topo IB signature motif; other site 28072000014 Protein of unknown function (DUF3122); Region: DUF3122; pfam11320 28072000015 Nuclease A inhibitor-like protein; Region: NuiA; pfam07924 28072000016 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 28072000017 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 28072000018 active site 28072000019 substrate binding site [chemical binding]; other site 28072000020 Mg2+ binding site [ion binding]; other site 28072000021 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 28072000022 putative hydrophobic ligand binding site [chemical binding]; other site 28072000023 Uncharacterized conserved protein [Function unknown]; Region: COG1359 28072000024 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 28072000025 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 28072000026 Low molecular weight phosphatase family; Region: LMWPc; cl00105 28072000027 active site 28072000028 Predicted transcriptional regulator [Transcription]; Region: COG2378 28072000029 WYL domain; Region: WYL; pfam13280 28072000030 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 28072000031 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 28072000032 CRISPR-associated protein; Region: DUF3692; pfam12469 28072000033 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 28072000034 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 28072000035 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 28072000036 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 28072000037 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 28072000038 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 28072000039 Nuclease-related domain; Region: NERD; pfam08378 28072000040 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 28072000041 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 28072000042 ATP binding site [chemical binding]; other site 28072000043 putative Mg++ binding site [ion binding]; other site 28072000044 Family description; Region: UvrD_C_2; pfam13538 28072000045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 28072000046 Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]; Region: NrdD; COG1328 28072000047 DDE superfamily endonuclease; Region: DDE_5; cl17874 28072000048 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 28072000049 replicative DNA helicase; Region: DnaB; TIGR00665 28072000050 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 28072000051 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 28072000052 Walker A motif; other site 28072000053 ATP binding site [chemical binding]; other site 28072000054 Walker B motif; other site 28072000055 DNA binding loops [nucleotide binding] 28072000056 Helix-turn-helix domain; Region: HTH_36; pfam13730 28072000057 Transcriptional regulators [Transcription]; Region: MarR; COG1846 28072000058 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072000059 non-specific DNA binding site [nucleotide binding]; other site 28072000060 salt bridge; other site 28072000061 sequence-specific DNA binding site [nucleotide binding]; other site 28072000062 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 28072000063 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072000064 ATP binding site [chemical binding]; other site 28072000065 putative Mg++ binding site [ion binding]; other site 28072000066 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072000067 nucleotide binding region [chemical binding]; other site 28072000068 ATP-binding site [chemical binding]; other site 28072000069 Antirestriction protein (ArdA); Region: ArdA; cl01953 28072000070 ERF superfamily; Region: ERF; pfam04404 28072000071 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 28072000072 Catalytic site; other site 28072000073 Staphylococcal nuclease homologue; Region: SNase; pfam00565 28072000074 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 28072000075 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 28072000076 Outer membrane efflux protein; Region: OEP; pfam02321 28072000077 AAA-like domain; Region: AAA_10; pfam12846 28072000078 Domain of unknown function DUF87; Region: DUF87; pfam01935 28072000079 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 28072000080 AAA domain; Region: AAA_22; pfam13401 28072000081 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072000082 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 28072000083 ParB-like nuclease domain; Region: ParB; smart00470 28072000084 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 28072000085 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072000086 P-loop; other site 28072000087 Magnesium ion binding site [ion binding]; other site 28072000088 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072000089 Magnesium ion binding site [ion binding]; other site 28072000090 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 28072000091 DnaA N-terminal domain; Region: DnaA_N; pfam11638 28072000092 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072000093 Walker A motif; other site 28072000094 ATP binding site [chemical binding]; other site 28072000095 Walker B motif; other site 28072000096 arginine finger; other site 28072000097 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 28072000098 DnaA box-binding interface [nucleotide binding]; other site 28072000099 DNA polymerase III subunit beta; Validated; Region: PRK05643 28072000100 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 28072000101 putative DNA binding surface [nucleotide binding]; other site 28072000102 dimer interface [polypeptide binding]; other site 28072000103 beta-clamp/clamp loader binding surface; other site 28072000104 beta-clamp/translesion DNA polymerase binding surface; other site 28072000105 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000106 GAF domain; Region: GAF; pfam01590 28072000107 Phytochrome region; Region: PHY; pfam00360 28072000108 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000109 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072000110 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072000111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072000112 dimer interface [polypeptide binding]; other site 28072000113 phosphorylation site [posttranslational modification] 28072000114 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000115 ATP binding site [chemical binding]; other site 28072000116 Mg2+ binding site [ion binding]; other site 28072000117 G-X-G motif; other site 28072000118 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 28072000119 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 28072000120 P loop; other site 28072000121 Nucleotide binding site [chemical binding]; other site 28072000122 DTAP/Switch II; other site 28072000123 Switch I; other site 28072000124 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 28072000125 hypothetical protein; Provisional; Region: PRK11281 28072000126 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 28072000127 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 28072000128 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 28072000129 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072000130 catalytic residues [active] 28072000131 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 28072000132 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 28072000133 NAD(P) binding site [chemical binding]; other site 28072000134 homotetramer interface [polypeptide binding]; other site 28072000135 homodimer interface [polypeptide binding]; other site 28072000136 active site 28072000137 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 28072000138 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 28072000139 Mg++ binding site [ion binding]; other site 28072000140 putative catalytic motif [active] 28072000141 substrate binding site [chemical binding]; other site 28072000142 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 28072000143 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 28072000144 ring oligomerisation interface [polypeptide binding]; other site 28072000145 ATP/Mg binding site [chemical binding]; other site 28072000146 stacking interactions; other site 28072000147 hinge regions; other site 28072000148 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 28072000149 heme binding pocket [chemical binding]; other site 28072000150 heme ligand [chemical binding]; other site 28072000151 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 28072000152 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 28072000153 active site 28072000154 substrate binding site [chemical binding]; other site 28072000155 metal binding site [ion binding]; metal-binding site 28072000156 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072000157 active site 28072000158 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 28072000159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072000160 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 28072000161 putative ADP-binding pocket [chemical binding]; other site 28072000162 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 28072000163 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 28072000164 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 28072000165 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 28072000166 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 28072000167 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 28072000168 metal ion-dependent adhesion site (MIDAS); other site 28072000169 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 28072000170 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 28072000171 dimer interface [polypeptide binding]; other site 28072000172 decamer (pentamer of dimers) interface [polypeptide binding]; other site 28072000173 catalytic triad [active] 28072000174 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072000175 putative active site [active] 28072000176 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072000177 putative active site [active] 28072000178 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 28072000179 Dynamin family; Region: Dynamin_N; pfam00350 28072000180 G1 box; other site 28072000181 GTP/Mg2+ binding site [chemical binding]; other site 28072000182 G2 box; other site 28072000183 Switch I region; other site 28072000184 G3 box; other site 28072000185 Switch II region; other site 28072000186 G4 box; other site 28072000187 G5 box; other site 28072000188 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072000189 HSP70 interaction site [polypeptide binding]; other site 28072000190 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 28072000191 Dynamin family; Region: Dynamin_N; pfam00350 28072000192 G1 box; other site 28072000193 GTP/Mg2+ binding site [chemical binding]; other site 28072000194 G2 box; other site 28072000195 Switch I region; other site 28072000196 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 28072000197 G3 box; other site 28072000198 Switch II region; other site 28072000199 GTP/Mg2+ binding site [chemical binding]; other site 28072000200 G4 box; other site 28072000201 G5 box; other site 28072000202 Family description; Region: VCBS; pfam13517 28072000203 Family description; Region: VCBS; pfam13517 28072000204 Family description; Region: VCBS; pfam13517 28072000205 Family description; Region: VCBS; pfam13517 28072000206 Family description; Region: VCBS; pfam13517 28072000207 Family description; Region: VCBS; pfam13517 28072000208 Family description; Region: VCBS; pfam13517 28072000209 Family description; Region: VCBS; pfam13517 28072000210 Family description; Region: VCBS; pfam13517 28072000211 Family description; Region: VCBS; pfam13517 28072000212 Family description; Region: VCBS; pfam13517 28072000213 Family description; Region: VCBS; pfam13517 28072000214 Family description; Region: VCBS; pfam13517 28072000215 Family description; Region: VCBS; pfam13517 28072000216 VCBS repeat; Region: VCBS_repeat; TIGR01965 28072000217 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 28072000218 TIGR03032 family protein; Region: TIGR03032 28072000219 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 28072000220 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072000221 Coenzyme A binding pocket [chemical binding]; other site 28072000222 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000223 TPR motif; other site 28072000224 binding surface 28072000225 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000226 TPR motif; other site 28072000227 TPR repeat; Region: TPR_11; pfam13414 28072000228 binding surface 28072000229 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 28072000230 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 28072000231 dimer interface [polypeptide binding]; other site 28072000232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072000233 catalytic residue [active] 28072000234 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 28072000235 dimer interface [polypeptide binding]; other site 28072000236 [2Fe-2S] cluster binding site [ion binding]; other site 28072000237 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 28072000238 Adenosine/AMP deaminase. Adenosine deaminases (ADAs) are present in pro- and eukaryotic organisms and catalyze the zinc dependent irreversible deamination of adenosine nucleosides to inosine nucleosides and ammonia. The eukaryotic AMP deaminase...; Region: ADA_AMPD; cd00443 28072000239 active site 28072000240 CHASE3 domain; Region: CHASE3; cl05000 28072000241 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072000242 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000243 putative active site [active] 28072000244 heme pocket [chemical binding]; other site 28072000245 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000246 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072000247 putative active site [active] 28072000248 heme pocket [chemical binding]; other site 28072000249 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072000250 dimer interface [polypeptide binding]; other site 28072000251 phosphorylation site [posttranslational modification] 28072000252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000253 ATP binding site [chemical binding]; other site 28072000254 Mg2+ binding site [ion binding]; other site 28072000255 G-X-G motif; other site 28072000256 Response regulator receiver domain; Region: Response_reg; pfam00072 28072000257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072000258 active site 28072000259 phosphorylation site [posttranslational modification] 28072000260 intermolecular recognition site; other site 28072000261 dimerization interface [polypeptide binding]; other site 28072000262 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 28072000263 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 28072000264 GDP-binding site [chemical binding]; other site 28072000265 ACT binding site; other site 28072000266 IMP binding site; other site 28072000267 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 28072000268 5S rRNA interface [nucleotide binding]; other site 28072000269 CTC domain interface [polypeptide binding]; other site 28072000270 L16 interface [polypeptide binding]; other site 28072000271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 28072000272 Ecdysteroid kinase; Region: EcKinase; cl17738 28072000273 Predicted kinase [General function prediction only]; Region: COG0645 28072000274 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 28072000275 ATP-binding site [chemical binding]; other site 28072000276 Gluconate-6-phosphate binding site [chemical binding]; other site 28072000277 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 28072000278 Uncharacterized conserved protein [Function unknown]; Region: COG1434 28072000279 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 28072000280 putative active site [active] 28072000281 Ferredoxin thioredoxin reductase variable alpha chain; Region: FeThRed_A; pfam02941 28072000282 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 28072000283 Protein phosphatase 2C; Region: PP2C; pfam00481 28072000284 active site 28072000285 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 28072000286 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 28072000287 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 28072000288 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 28072000289 metal binding site 2 [ion binding]; metal-binding site 28072000290 putative DNA binding helix; other site 28072000291 metal binding site 1 [ion binding]; metal-binding site 28072000292 dimer interface [polypeptide binding]; other site 28072000293 structural Zn2+ binding site [ion binding]; other site 28072000294 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 28072000295 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 28072000296 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 28072000297 putative active site [active] 28072000298 catalytic triad [active] 28072000299 anthranilate synthase component I; Provisional; Region: PRK13565 28072000300 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 28072000301 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 28072000302 PsaD; Region: PsaD; pfam02531 28072000303 Predicted sensor protein/domain [Signal transduction mechanisms]; Region: COG4250 28072000304 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000305 GAF domain; Region: GAF; pfam01590 28072000306 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072000307 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072000308 dimer interface [polypeptide binding]; other site 28072000309 phosphorylation site [posttranslational modification] 28072000310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000311 ATP binding site [chemical binding]; other site 28072000312 Mg2+ binding site [ion binding]; other site 28072000313 G-X-G motif; other site 28072000314 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 28072000315 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 28072000316 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 28072000317 Protein of unknown function (DUF2973); Region: DUF2973; pfam11189 28072000318 Protein of unknown function (DUF2605); Region: DUF2605; pfam10792 28072000319 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 28072000320 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 28072000321 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 28072000322 active site 28072000323 dimer interface [polypeptide binding]; other site 28072000324 motif 1; other site 28072000325 motif 2; other site 28072000326 motif 3; other site 28072000327 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 28072000328 anticodon binding site; other site 28072000329 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 28072000330 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 28072000331 DNA binding residues [nucleotide binding] 28072000332 drug binding residues [chemical binding]; other site 28072000333 dimer interface [polypeptide binding]; other site 28072000334 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 28072000335 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 28072000336 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 28072000337 ABC-ATPase subunit interface; other site 28072000338 dimer interface [polypeptide binding]; other site 28072000339 putative PBP binding regions; other site 28072000340 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072000341 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 28072000342 Walker A/P-loop; other site 28072000343 ATP binding site [chemical binding]; other site 28072000344 Q-loop/lid; other site 28072000345 ABC transporter signature motif; other site 28072000346 Walker B; other site 28072000347 D-loop; other site 28072000348 H-loop/switch region; other site 28072000349 AMIN domain; Region: AMIN; pfam11741 28072000350 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 28072000351 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072000352 N-terminal plug; other site 28072000353 ligand-binding site [chemical binding]; other site 28072000354 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072000355 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 28072000356 putative ligand binding site [chemical binding]; other site 28072000357 homoserine kinase; Provisional; Region: PRK01212 28072000358 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 28072000359 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 28072000360 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 28072000361 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072000362 2TM domain; Region: 2TM; pfam13239 28072000363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072000364 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 28072000365 NAD(P) binding site [chemical binding]; other site 28072000366 active site 28072000367 Predicted transcriptional regulator [Transcription]; Region: COG2345 28072000368 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072000369 putative DNA binding site [nucleotide binding]; other site 28072000370 putative Zn2+ binding site [ion binding]; other site 28072000371 TPR repeat; Region: TPR_11; pfam13414 28072000372 TPR repeat; Region: TPR_11; pfam13414 28072000373 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000374 binding surface 28072000375 TPR motif; other site 28072000376 TPR repeat; Region: TPR_11; pfam13414 28072000377 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000378 binding surface 28072000379 TPR motif; other site 28072000380 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 28072000381 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072000382 Walker A motif; other site 28072000383 ATP binding site [chemical binding]; other site 28072000384 Walker B motif; other site 28072000385 arginine finger; other site 28072000386 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 28072000387 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 28072000388 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 28072000389 substrate binding site [chemical binding]; other site 28072000390 glutamase interaction surface [polypeptide binding]; other site 28072000391 Uncharacterized conserved protein [Function unknown]; Region: COG0062 28072000392 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 28072000393 putative substrate binding site [chemical binding]; other site 28072000394 putative ATP binding site [chemical binding]; other site 28072000395 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 28072000396 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 28072000397 Protein of unknown function, DUF608; Region: DUF608; pfam04685 28072000398 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 28072000399 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072000400 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 28072000401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 28072000402 Response regulator receiver domain; Region: Response_reg; pfam00072 28072000403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072000404 active site 28072000405 phosphorylation site [posttranslational modification] 28072000406 intermolecular recognition site; other site 28072000407 dimerization interface [polypeptide binding]; other site 28072000408 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072000409 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072000410 dimer interface [polypeptide binding]; other site 28072000411 phosphorylation site [posttranslational modification] 28072000412 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000413 ATP binding site [chemical binding]; other site 28072000414 Mg2+ binding site [ion binding]; other site 28072000415 G-X-G motif; other site 28072000416 PAS domain S-box; Region: sensory_box; TIGR00229 28072000417 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000418 putative active site [active] 28072000419 heme pocket [chemical binding]; other site 28072000420 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000421 PAS fold; Region: PAS_3; pfam08447 28072000422 putative active site [active] 28072000423 heme pocket [chemical binding]; other site 28072000424 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000425 PAS fold; Region: PAS_3; pfam08447 28072000426 putative active site [active] 28072000427 heme pocket [chemical binding]; other site 28072000428 PAS domain S-box; Region: sensory_box; TIGR00229 28072000429 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000430 putative active site [active] 28072000431 heme pocket [chemical binding]; other site 28072000432 PAS fold; Region: PAS_3; pfam08447 28072000433 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000434 heme pocket [chemical binding]; other site 28072000435 putative active site [active] 28072000436 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000437 PAS domain; Region: PAS_9; pfam13426 28072000438 putative active site [active] 28072000439 heme pocket [chemical binding]; other site 28072000440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072000441 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072000442 dimer interface [polypeptide binding]; other site 28072000443 phosphorylation site [posttranslational modification] 28072000444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000445 ATP binding site [chemical binding]; other site 28072000446 Mg2+ binding site [ion binding]; other site 28072000447 G-X-G motif; other site 28072000448 Response regulator receiver domain; Region: Response_reg; pfam00072 28072000449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072000450 active site 28072000451 phosphorylation site [posttranslational modification] 28072000452 intermolecular recognition site; other site 28072000453 dimerization interface [polypeptide binding]; other site 28072000454 Response regulator receiver domain; Region: Response_reg; pfam00072 28072000455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072000456 active site 28072000457 phosphorylation site [posttranslational modification] 28072000458 intermolecular recognition site; other site 28072000459 dimerization interface [polypeptide binding]; other site 28072000460 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072000461 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072000462 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072000463 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072000464 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072000465 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 28072000466 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 28072000467 active site 28072000468 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 28072000469 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072000470 motif II; other site 28072000471 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072000472 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072000473 ligand binding site [chemical binding]; other site 28072000474 flexible hinge region; other site 28072000475 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 28072000476 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 28072000477 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 28072000478 Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) [Signal transduction mechanisms]; Region: COG3476 28072000479 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 28072000480 Restriction endonuclease; Region: Mrr_cat; pfam04471 28072000481 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 28072000482 Protein of unknown function (DUF1308); Region: DUF1308; pfam07000 28072000483 Clp protease ATP binding subunit; Region: clpC; CHL00095 28072000484 Clp amino terminal domain; Region: Clp_N; pfam02861 28072000485 Clp amino terminal domain; Region: Clp_N; pfam02861 28072000486 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072000487 Walker A motif; other site 28072000488 ATP binding site [chemical binding]; other site 28072000489 Walker B motif; other site 28072000490 arginine finger; other site 28072000491 UvrB/uvrC motif; Region: UVR; pfam02151 28072000492 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072000493 Walker A motif; other site 28072000494 ATP binding site [chemical binding]; other site 28072000495 Walker B motif; other site 28072000496 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 28072000497 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 28072000498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072000499 Coenzyme A binding pocket [chemical binding]; other site 28072000500 diaminopimelate decarboxylase; Region: lysA; TIGR01048 28072000501 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 28072000502 active site 28072000503 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 28072000504 substrate binding site [chemical binding]; other site 28072000505 catalytic residues [active] 28072000506 dimer interface [polypeptide binding]; other site 28072000507 Uncharacterized conserved protein [Function unknown]; Region: COG1624 28072000508 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 28072000509 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 28072000510 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 28072000511 catalytic residue [active] 28072000512 putative FPP diphosphate binding site; other site 28072000513 putative FPP binding hydrophobic cleft; other site 28072000514 dimer interface [polypeptide binding]; other site 28072000515 putative IPP diphosphate binding site; other site 28072000516 Protein of unknown function (DUF3143); Region: DUF3143; pfam11341 28072000517 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072000518 HSP70 interaction site [polypeptide binding]; other site 28072000519 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 28072000520 Ycf35; Provisional; Region: ycf35; CHL00193 28072000521 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 28072000522 phosphodiesterase YaeI; Provisional; Region: PRK11340 28072000523 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 28072000524 putative active site [active] 28072000525 putative metal binding site [ion binding]; other site 28072000526 phosphodiesterase YaeI; Provisional; Region: PRK11340 28072000527 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 28072000528 putative active site [active] 28072000529 putative metal binding site [ion binding]; other site 28072000530 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 28072000531 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072000532 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072000533 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072000534 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 28072000535 putative acyl-acceptor binding pocket; other site 28072000536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072000537 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 28072000538 Probable transposase; Region: OrfB_IS605; pfam01385 28072000539 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072000540 Transposase IS200 like; Region: Y1_Tnp; pfam01797 28072000541 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 28072000542 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 28072000543 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072000544 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 28072000545 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072000546 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072000547 active site 28072000548 DNA binding site [nucleotide binding] 28072000549 Int/Topo IB signature motif; other site 28072000550 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072000551 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 28072000552 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072000553 active site 28072000554 DNA binding site [nucleotide binding] 28072000555 Int/Topo IB signature motif; other site 28072000556 TPR repeat; Region: TPR_11; pfam13414 28072000557 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000558 binding surface 28072000559 TPR motif; other site 28072000560 TPR repeat; Region: TPR_11; pfam13414 28072000561 TPR repeat; Region: TPR_11; pfam13414 28072000562 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000563 binding surface 28072000564 TPR motif; other site 28072000565 TPR repeat; Region: TPR_11; pfam13414 28072000566 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000567 binding surface 28072000568 TPR motif; other site 28072000569 TPR repeat; Region: TPR_11; pfam13414 28072000570 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000571 binding surface 28072000572 TPR motif; other site 28072000573 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000574 binding surface 28072000575 TPR repeat; Region: TPR_11; pfam13414 28072000576 TPR motif; other site 28072000577 TPR repeat; Region: TPR_11; pfam13414 28072000578 probable pectinesterase/pectinesterase inhibitor; Region: PLN02416 28072000579 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072000580 non-specific DNA binding site [nucleotide binding]; other site 28072000581 salt bridge; other site 28072000582 sequence-specific DNA binding site [nucleotide binding]; other site 28072000583 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 28072000584 IHF - DNA interface [nucleotide binding]; other site 28072000585 IHF dimer interface [polypeptide binding]; other site 28072000586 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 28072000587 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 28072000588 putative dimer interface [polypeptide binding]; other site 28072000589 NTPase; Region: NTPase_1; cl17478 28072000590 HEAT repeats; Region: HEAT_2; pfam13646 28072000591 AAA domain; Region: AAA_31; pfam13614 28072000592 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072000593 P-loop; other site 28072000594 Magnesium ion binding site [ion binding]; other site 28072000595 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072000596 Magnesium ion binding site [ion binding]; other site 28072000597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072000598 Probable transposase; Region: OrfB_IS605; pfam01385 28072000599 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072000600 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 28072000601 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 28072000602 AP (apurinic/apyrimidinic) site pocket; other site 28072000603 Metal-binding active site; metal-binding site 28072000604 molecular chaperone DnaK; Provisional; Region: PRK13411 28072000605 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 28072000606 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072000607 active site 28072000608 catalytic residues [active] 28072000609 DNA binding site [nucleotide binding] 28072000610 Int/Topo IB signature motif; other site 28072000611 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 28072000612 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 28072000613 Protein of unknown function (DUF4058); Region: DUF4058; pfam13267 28072000614 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 28072000615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072000616 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 28072000617 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072000618 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072000619 active site 28072000620 DNA binding site [nucleotide binding] 28072000621 Int/Topo IB signature motif; other site 28072000622 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072000623 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 28072000624 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072000625 active site 28072000626 DNA binding site [nucleotide binding] 28072000627 Int/Topo IB signature motif; other site 28072000628 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 28072000629 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 28072000630 active site 28072000631 catalytic site [active] 28072000632 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 28072000633 Photosystem II reaction centre N protein (psbN); Region: PsbN; pfam02468 28072000634 photosystem II reaction center protein H; Provisional; Region: psbH; PRK02624 28072000635 twin arginine translocase protein A; Provisional; Region: tatA; PRK14857 28072000636 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 28072000637 putative active site [active] 28072000638 catalytic residue [active] 28072000639 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 28072000640 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072000641 putative active site [active] 28072000642 Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only]; Region: Uma2; COG4636 28072000643 Protein of unknown function (DUF1257); Region: DUF1257; pfam06868 28072000644 Ycf46; Provisional; Region: ycf46; CHL00195 28072000645 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072000646 Walker A motif; other site 28072000647 ATP binding site [chemical binding]; other site 28072000648 Walker B motif; other site 28072000649 arginine finger; other site 28072000650 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 28072000651 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 28072000652 NAD binding site [chemical binding]; other site 28072000653 substrate binding site [chemical binding]; other site 28072000654 active site 28072000655 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072000656 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 28072000657 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072000658 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000659 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000660 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072000661 PAS fold; Region: PAS_4; pfam08448 28072000662 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000663 putative active site [active] 28072000664 heme pocket [chemical binding]; other site 28072000665 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 28072000666 cyclase homology domain; Region: CHD; cd07302 28072000667 nucleotidyl binding site; other site 28072000668 metal binding site [ion binding]; metal-binding site 28072000669 dimer interface [polypeptide binding]; other site 28072000670 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 28072000671 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 28072000672 ATP binding site [chemical binding]; other site 28072000673 active site 28072000674 substrate binding site [chemical binding]; other site 28072000675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 28072000676 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 28072000677 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 28072000678 Surface antigen; Region: Bac_surface_Ag; pfam01103 28072000679 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 28072000680 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 28072000681 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 28072000682 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 28072000683 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 28072000684 active site 28072000685 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 28072000686 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 28072000687 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 28072000688 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072000689 cofactor binding site; other site 28072000690 DNA binding site [nucleotide binding] 28072000691 substrate interaction site [chemical binding]; other site 28072000692 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072000693 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072000694 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 28072000695 active site 28072000696 catalytic tetrad [active] 28072000697 Uncharacterized conserved protein [Function unknown]; Region: COG3339 28072000698 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 28072000699 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 28072000700 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 28072000701 Predicted membrane protein [Function unknown]; Region: COG1950 28072000702 Thf1-like protein; Reviewed; Region: PRK13266 28072000703 photosystem II biogenesis protein Psp29; Region: PS_II_psb29; TIGR03060 28072000704 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 28072000705 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 28072000706 anti sigma factor interaction site; other site 28072000707 regulatory phosphorylation site [posttranslational modification]; other site 28072000708 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 28072000709 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 28072000710 Domain of unknown function DUF59; Region: DUF59; pfam01883 28072000711 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 28072000712 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 28072000713 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 28072000714 Protein of unknown function (DUF3252); Region: DUF3252; pfam11623 28072000715 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072000716 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 28072000717 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 28072000718 Ligand Binding Site [chemical binding]; other site 28072000719 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072000720 Ligand Binding Site [chemical binding]; other site 28072000721 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 28072000722 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 28072000723 NAD binding site [chemical binding]; other site 28072000724 putative substrate binding site 2 [chemical binding]; other site 28072000725 putative substrate binding site 1 [chemical binding]; other site 28072000726 active site 28072000727 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 28072000728 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072000729 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 28072000730 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 28072000731 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 28072000732 competence damage-inducible protein A; Provisional; Region: PRK00549 28072000733 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 28072000734 putative MPT binding site; other site 28072000735 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 28072000736 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 28072000737 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 28072000738 Mg++ binding site [ion binding]; other site 28072000739 putative catalytic motif [active] 28072000740 substrate binding site [chemical binding]; other site 28072000741 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 28072000742 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 28072000743 dimer interface [polypeptide binding]; other site 28072000744 active site 28072000745 glycine-pyridoxal phosphate binding site [chemical binding]; other site 28072000746 folate binding site [chemical binding]; other site 28072000747 chloroplast protein import component, Tic20 family; Region: 3a0901s05TIC20; TIGR00994 28072000748 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 28072000749 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 28072000750 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 28072000751 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 28072000752 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 28072000753 anti sigma factor interaction site; other site 28072000754 regulatory phosphorylation site [posttranslational modification]; other site 28072000755 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 28072000756 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 28072000757 argininosuccinate synthase; Provisional; Region: PRK13820 28072000758 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 28072000759 ANP binding site [chemical binding]; other site 28072000760 Substrate Binding Site II [chemical binding]; other site 28072000761 Substrate Binding Site I [chemical binding]; other site 28072000762 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072000763 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 28072000764 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072000765 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 28072000766 Probable Catalytic site; other site 28072000767 metal-binding site 28072000768 Uncharacterized conserved protein [Function unknown]; Region: COG4938 28072000769 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 28072000770 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 28072000771 rRNA interaction site [nucleotide binding]; other site 28072000772 S8 interaction site; other site 28072000773 putative laminin-1 binding site; other site 28072000774 elongation factor Ts; Provisional; Region: tsf; PRK09377 28072000775 UBA/TS-N domain; Region: UBA; pfam00627 28072000776 Elongation factor TS; Region: EF_TS; pfam00889 28072000777 Elongation factor TS; Region: EF_TS; pfam00889 28072000778 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 28072000779 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 28072000780 generic binding surface II; other site 28072000781 ssDNA binding site; other site 28072000782 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072000783 ATP binding site [chemical binding]; other site 28072000784 putative Mg++ binding site [ion binding]; other site 28072000785 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072000786 nucleotide binding region [chemical binding]; other site 28072000787 ATP-binding site [chemical binding]; other site 28072000788 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 28072000789 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072000790 P-loop; other site 28072000791 Magnesium ion binding site [ion binding]; other site 28072000792 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072000793 Magnesium ion binding site [ion binding]; other site 28072000794 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 28072000795 catalytic site [active] 28072000796 putative active site [active] 28072000797 putative substrate binding site [chemical binding]; other site 28072000798 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 28072000799 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 28072000800 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 28072000801 AAA ATPase domain; Region: AAA_16; pfam13191 28072000802 AAA domain; Region: AAA_22; pfam13401 28072000803 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072000804 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 28072000805 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 28072000806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 28072000807 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 28072000808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 28072000809 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 28072000810 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 28072000811 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 28072000812 active site 28072000813 intersubunit interface [polypeptide binding]; other site 28072000814 catalytic residue [active] 28072000815 Erythromycin esterase; Region: Erythro_esteras; pfam05139 28072000816 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 28072000817 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 28072000818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072000819 Coenzyme A binding pocket [chemical binding]; other site 28072000820 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072000821 putative cation:proton antiport protein; Provisional; Region: PRK10669 28072000822 TrkA-N domain; Region: TrkA_N; pfam02254 28072000823 TrkA-C domain; Region: TrkA_C; pfam02080 28072000824 TrkA-C domain; Region: TrkA_C; pfam02080 28072000825 Sm and related proteins; Region: Sm_like; cl00259 28072000826 heptamer interface [polypeptide binding]; other site 28072000827 Sm1 motif; other site 28072000828 hexamer interface [polypeptide binding]; other site 28072000829 RNA binding site [nucleotide binding]; other site 28072000830 Sm2 motif; other site 28072000831 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 28072000832 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 28072000833 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 28072000834 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 28072000835 endonuclease III; Region: ENDO3c; smart00478 28072000836 minor groove reading motif; other site 28072000837 helix-hairpin-helix signature motif; other site 28072000838 substrate binding pocket [chemical binding]; other site 28072000839 active site 28072000840 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072000841 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000842 putative active site [active] 28072000843 heme pocket [chemical binding]; other site 28072000844 PAS domain S-box; Region: sensory_box; TIGR00229 28072000845 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000846 putative active site [active] 28072000847 heme pocket [chemical binding]; other site 28072000848 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000849 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072000850 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072000851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000852 ATP binding site [chemical binding]; other site 28072000853 Mg2+ binding site [ion binding]; other site 28072000854 G-X-G motif; other site 28072000855 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 28072000856 TrkA-N domain; Region: TrkA_N; pfam02254 28072000857 TrkA-N domain; Region: TrkA_N; pfam02254 28072000858 TrkA-C domain; Region: TrkA_C; pfam02080 28072000859 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 28072000860 PAS domain S-box; Region: sensory_box; TIGR00229 28072000861 PAS fold; Region: PAS_4; pfam08448 28072000862 PAS domain S-box; Region: sensory_box; TIGR00229 28072000863 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072000864 putative active site [active] 28072000865 heme pocket [chemical binding]; other site 28072000866 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072000867 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072000868 GAF domain; Region: GAF_2; pfam13185 28072000869 GAF domain; Region: GAF; pfam01590 28072000870 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072000871 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072000872 dimer interface [polypeptide binding]; other site 28072000873 phosphorylation site [posttranslational modification] 28072000874 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072000875 ATP binding site [chemical binding]; other site 28072000876 Mg2+ binding site [ion binding]; other site 28072000877 G-X-G motif; other site 28072000878 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072000879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072000880 active site 28072000881 phosphorylation site [posttranslational modification] 28072000882 intermolecular recognition site; other site 28072000883 dimerization interface [polypeptide binding]; other site 28072000884 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072000885 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 28072000886 Probable transposase; Region: OrfB_IS605; pfam01385 28072000887 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072000888 Transposase IS200 like; Region: Y1_Tnp; pfam01797 28072000889 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 28072000890 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 28072000891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072000892 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 28072000893 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072000894 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072000895 active site 28072000896 DNA binding site [nucleotide binding] 28072000897 Int/Topo IB signature motif; other site 28072000898 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072000899 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 28072000900 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072000901 active site 28072000902 DNA binding site [nucleotide binding] 28072000903 Int/Topo IB signature motif; other site 28072000904 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 28072000905 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 28072000906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072000907 catalytic residue [active] 28072000908 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 28072000909 RuvA N terminal domain; Region: RuvA_N; pfam01330 28072000910 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 28072000911 sucrose-6F-phosphate phosphohydrolase; Region: SPP_plant-cyano; TIGR01485 28072000912 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 28072000913 glucose-1-dehydrogenase; Provisional; Region: PRK08936 28072000914 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 28072000915 NAD binding site [chemical binding]; other site 28072000916 homodimer interface [polypeptide binding]; other site 28072000917 active site 28072000918 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072000919 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072000920 Exonuclease VII small subunit [DNA replication, recombination, and repair]; Region: XseB; COG1722 28072000921 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 28072000922 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 28072000923 generic binding surface II; other site 28072000924 generic binding surface I; other site 28072000925 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 28072000926 homodimer interface [polypeptide binding]; other site 28072000927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072000928 catalytic residue [active] 28072000929 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072000930 Walker A motif; other site 28072000931 ATP binding site [chemical binding]; other site 28072000932 Walker B motif; other site 28072000933 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072000934 binding surface 28072000935 TPR motif; other site 28072000936 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072000937 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 28072000938 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 28072000939 putative active site [active] 28072000940 adenylation catalytic residue [active] 28072000941 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072000942 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 28072000943 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 28072000944 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 28072000945 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 28072000946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072000947 NAD(P) binding site [chemical binding]; other site 28072000948 active site 28072000949 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072000950 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072000951 Walker A/P-loop; other site 28072000952 ATP binding site [chemical binding]; other site 28072000953 Q-loop/lid; other site 28072000954 ABC transporter signature motif; other site 28072000955 Walker B; other site 28072000956 D-loop; other site 28072000957 H-loop/switch region; other site 28072000958 DevC protein; Region: devC; TIGR01185 28072000959 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072000960 FtsX-like permease family; Region: FtsX; pfam02687 28072000961 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072000962 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072000963 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 28072000964 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072000965 active site 28072000966 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 28072000967 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 28072000968 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 28072000969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072000970 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 28072000971 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 28072000972 putative NADP binding site [chemical binding]; other site 28072000973 active site 28072000974 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 28072000975 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 28072000976 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072000977 active site 28072000978 Acyl transferase domain; Region: Acyl_transf_1; cl08282 28072000979 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 28072000980 FMN binding site [chemical binding]; other site 28072000981 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 28072000982 substrate binding site [chemical binding]; other site 28072000983 putative catalytic residue [active] 28072000984 acyltransferase PapA5; Provisional; Region: PRK09294 28072000985 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 28072000986 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 28072000987 FAD binding domain; Region: FAD_binding_4; pfam01565 28072000988 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 28072000989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072000990 dimer interface [polypeptide binding]; other site 28072000991 conserved gate region; other site 28072000992 putative PBP binding loops; other site 28072000993 ABC-ATPase subunit interface; other site 28072000994 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 28072000995 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072000996 Walker A/P-loop; other site 28072000997 ATP binding site [chemical binding]; other site 28072000998 Q-loop/lid; other site 28072000999 ABC transporter signature motif; other site 28072001000 Walker B; other site 28072001001 D-loop; other site 28072001002 H-loop/switch region; other site 28072001003 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072001004 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001005 TPR repeat; Region: TPR_11; pfam13414 28072001006 binding surface 28072001007 TPR motif; other site 28072001008 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 28072001009 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 28072001010 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 28072001011 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14333 28072001012 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 28072001013 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072001014 FeS/SAM binding site; other site 28072001015 TRAM domain; Region: TRAM; pfam01938 28072001016 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 28072001017 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 28072001018 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 28072001019 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 28072001020 active site 28072001021 dimer interface [polypeptide binding]; other site 28072001022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072001023 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 28072001024 NAD(P) binding site [chemical binding]; other site 28072001025 active site 28072001026 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072001027 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072001028 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 28072001029 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072001030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 28072001031 septum formation inhibitor; Reviewed; Region: minC; PRK00513 28072001032 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 28072001033 septum site-determining protein MinD; Region: minD_bact; TIGR01968 28072001034 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 28072001035 Switch I; other site 28072001036 Switch II; other site 28072001037 cell division topological specificity factor MinE; Provisional; Region: PRK13988 28072001038 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 28072001039 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 28072001040 putative active site [active] 28072001041 substrate binding site [chemical binding]; other site 28072001042 putative cosubstrate binding site; other site 28072001043 catalytic site [active] 28072001044 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 28072001045 substrate binding site [chemical binding]; other site 28072001046 photosystem I subunit VII; Region: psaC; CHL00065 28072001047 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 28072001048 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 28072001049 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 28072001050 glutaminase active site [active] 28072001051 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 28072001052 dimer interface [polypeptide binding]; other site 28072001053 active site 28072001054 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 28072001055 dimer interface [polypeptide binding]; other site 28072001056 active site 28072001057 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 28072001058 ATP binding site [chemical binding]; other site 28072001059 Mg2+ binding site [ion binding]; other site 28072001060 G-X-G motif; other site 28072001061 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072001062 oligomeric interface; other site 28072001063 putative active site [active] 28072001064 homodimer interface [polypeptide binding]; other site 28072001065 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 28072001066 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 28072001067 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 28072001068 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 28072001069 active site 28072001070 metal binding site [ion binding]; metal-binding site 28072001071 MarR family; Region: MarR_2; cl17246 28072001072 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 28072001073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 28072001074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 28072001075 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072001076 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072001077 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072001078 dimer interface [polypeptide binding]; other site 28072001079 phosphorylation site [posttranslational modification] 28072001080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001081 ATP binding site [chemical binding]; other site 28072001082 Mg2+ binding site [ion binding]; other site 28072001083 G-X-G motif; other site 28072001084 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 28072001085 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072001086 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072001087 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072001088 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072001089 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072001090 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072001091 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072001092 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 28072001093 metal binding site 2 [ion binding]; metal-binding site 28072001094 putative DNA binding helix; other site 28072001095 metal binding site 1 [ion binding]; metal-binding site 28072001096 dimer interface [polypeptide binding]; other site 28072001097 structural Zn2+ binding site [ion binding]; other site 28072001098 RNA polymerase sigma factor SigC; Validated; Region: PRK07598 28072001099 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 28072001100 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072001101 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072001102 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072001103 DNA binding residues [nucleotide binding] 28072001104 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14619 28072001105 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 28072001106 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 28072001107 lipoyl synthase; Provisional; Region: PRK05481 28072001108 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072001109 FeS/SAM binding site; other site 28072001110 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072001111 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072001112 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 28072001113 Walker A/P-loop; other site 28072001114 ATP binding site [chemical binding]; other site 28072001115 Q-loop/lid; other site 28072001116 ABC transporter signature motif; other site 28072001117 Walker B; other site 28072001118 D-loop; other site 28072001119 H-loop/switch region; other site 28072001120 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 28072001121 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 28072001122 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 28072001123 active site clefts [active] 28072001124 zinc binding site [ion binding]; other site 28072001125 dimer interface [polypeptide binding]; other site 28072001126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 28072001127 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 28072001128 Walker A/P-loop; other site 28072001129 ATP binding site [chemical binding]; other site 28072001130 Q-loop/lid; other site 28072001131 ABC transporter signature motif; other site 28072001132 Walker B; other site 28072001133 D-loop; other site 28072001134 H-loop/switch region; other site 28072001135 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 28072001136 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 28072001137 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 28072001138 Chain length determinant protein; Region: Wzz; cl15801 28072001139 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 28072001140 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 28072001141 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072001142 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 28072001143 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 28072001144 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 28072001145 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072001146 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072001147 active site 28072001148 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 28072001149 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072001150 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072001151 active site 28072001152 Uncharacterized conserved protein [Function unknown]; Region: COG3379 28072001153 Uncharacterized conserved protein [Function unknown]; Region: COG3379 28072001154 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 28072001155 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 28072001156 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 28072001157 O-Antigen ligase; Region: Wzy_C; pfam04932 28072001158 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072001159 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072001160 active site 28072001161 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 28072001162 Bacterial sugar transferase; Region: Bac_transf; pfam02397 28072001163 Ferredoxin [Energy production and conversion]; Region: COG1146 28072001164 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 28072001165 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 28072001166 dimer interface [polypeptide binding]; other site 28072001167 motif 1; other site 28072001168 active site 28072001169 motif 2; other site 28072001170 motif 3; other site 28072001171 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 28072001172 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072001173 HSP70 interaction site [polypeptide binding]; other site 28072001174 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001175 binding surface 28072001176 TPR motif; other site 28072001177 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 28072001178 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 28072001179 active site 28072001180 dimerization interface [polypeptide binding]; other site 28072001181 Staphylococcal nuclease homologues; Region: SNc; smart00318 28072001182 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 28072001183 Catalytic site; other site 28072001184 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 28072001185 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072001186 catalytic loop [active] 28072001187 iron binding site [ion binding]; other site 28072001188 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 28072001189 proposed catalytic triad [active] 28072001190 active site nucleophile [active] 28072001191 cyanophycin synthetase; Provisional; Region: PRK14016 28072001192 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 28072001193 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 28072001194 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 28072001195 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 28072001196 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 28072001197 glycogen binding site [chemical binding]; other site 28072001198 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 28072001199 active site 28072001200 catalytic site [active] 28072001201 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 28072001202 Domain of unknown function (DUF1823); Region: DUF1823; pfam08853 28072001203 acylphosphatase; Provisional; Region: PRK14423 28072001204 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 28072001205 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 28072001206 putative NAD(P) binding site [chemical binding]; other site 28072001207 putative substrate binding site [chemical binding]; other site 28072001208 catalytic Zn binding site [ion binding]; other site 28072001209 structural Zn binding site [ion binding]; other site 28072001210 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 28072001211 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072001212 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 28072001213 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 28072001214 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 28072001215 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 28072001216 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 28072001217 active site 28072001218 Zn binding site [ion binding]; other site 28072001219 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072001220 Ligand Binding Site [chemical binding]; other site 28072001221 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072001222 Ligand Binding Site [chemical binding]; other site 28072001223 photosystem II reaction center protein M; Provisional; Region: psbM; PRK04989 28072001224 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 28072001225 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072001226 catalytic loop [active] 28072001227 iron binding site [ion binding]; other site 28072001228 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 28072001229 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 28072001230 cobalamin synthase; Reviewed; Region: cobS; PRK00235 28072001231 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072001232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 28072001233 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 28072001234 Beta-lactamase; Region: Beta-lactamase; pfam00144 28072001235 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 28072001236 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 28072001237 comF family protein; Region: comF; TIGR00201 28072001238 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072001239 active site 28072001240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072001241 Coenzyme A binding pocket [chemical binding]; other site 28072001242 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072001243 AAA domain; Region: AAA_21; pfam13304 28072001244 Walker A/P-loop; other site 28072001245 ATP binding site [chemical binding]; other site 28072001246 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072001247 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 28072001248 active site 28072001249 metal binding site [ion binding]; metal-binding site 28072001250 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 28072001251 active site 28072001252 dinuclear metal binding site [ion binding]; other site 28072001253 dimerization interface [polypeptide binding]; other site 28072001254 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072001255 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 28072001256 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 28072001257 Ligand Binding Site [chemical binding]; other site 28072001258 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 28072001259 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 28072001260 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 28072001261 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 28072001262 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072001263 FeS/SAM binding site; other site 28072001264 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 28072001265 dimer interface [polypeptide binding]; other site 28072001266 ADP-ribose binding site [chemical binding]; other site 28072001267 active site 28072001268 nudix motif; other site 28072001269 metal binding site [ion binding]; metal-binding site 28072001270 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 28072001271 catalytic center binding site [active] 28072001272 ATP binding site [chemical binding]; other site 28072001273 Transglycosylase; Region: Transgly; pfam00912 28072001274 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 28072001275 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 28072001276 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 28072001277 active site residue [active] 28072001278 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 28072001279 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001280 ATP binding site [chemical binding]; other site 28072001281 Mg2+ binding site [ion binding]; other site 28072001282 G-X-G motif; other site 28072001283 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 28072001284 ATP binding site [chemical binding]; other site 28072001285 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 28072001286 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 28072001287 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 28072001288 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 28072001289 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 28072001290 dimer interface [polypeptide binding]; other site 28072001291 phosphorylation site [posttranslational modification] 28072001292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001293 ATP binding site [chemical binding]; other site 28072001294 Mg2+ binding site [ion binding]; other site 28072001295 G-X-G motif; other site 28072001296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001297 PAS domain; Region: PAS_9; pfam13426 28072001298 putative active site [active] 28072001299 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 28072001300 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072001301 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072001302 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001303 binding surface 28072001304 TPR motif; other site 28072001305 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072001306 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001307 binding surface 28072001308 TPR motif; other site 28072001309 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072001310 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072001311 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 28072001312 binding surface 28072001313 TPR motif; other site 28072001314 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 28072001315 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072001316 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072001317 dimer interface [polypeptide binding]; other site 28072001318 phosphorylation site [posttranslational modification] 28072001319 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001320 ATP binding site [chemical binding]; other site 28072001321 Mg2+ binding site [ion binding]; other site 28072001322 G-X-G motif; other site 28072001323 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 28072001324 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 28072001325 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 28072001326 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 28072001327 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 28072001328 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072001329 putative active site [active] 28072001330 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 28072001331 aromatic amino acid transport protein; Region: araaP; TIGR00837 28072001332 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072001333 AAA domain; Region: AAA_18; pfam13238 28072001334 Walker A motif; other site 28072001335 ATP binding site [chemical binding]; other site 28072001336 Walker B motif; other site 28072001337 arginine finger; other site 28072001338 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072001339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001340 active site 28072001341 phosphorylation site [posttranslational modification] 28072001342 intermolecular recognition site; other site 28072001343 dimerization interface [polypeptide binding]; other site 28072001344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001345 active site 28072001346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072001347 phosphorylation site [posttranslational modification] 28072001348 intermolecular recognition site; other site 28072001349 dimerization interface [polypeptide binding]; other site 28072001350 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072001351 dimer interface [polypeptide binding]; other site 28072001352 phosphorylation site [posttranslational modification] 28072001353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001354 ATP binding site [chemical binding]; other site 28072001355 Mg2+ binding site [ion binding]; other site 28072001356 G-X-G motif; other site 28072001357 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072001358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001359 active site 28072001360 phosphorylation site [posttranslational modification] 28072001361 intermolecular recognition site; other site 28072001362 dimerization interface [polypeptide binding]; other site 28072001363 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072001364 dimer interface [polypeptide binding]; other site 28072001365 phosphorylation site [posttranslational modification] 28072001366 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001367 ATP binding site [chemical binding]; other site 28072001368 Mg2+ binding site [ion binding]; other site 28072001369 G-X-G motif; other site 28072001370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072001371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001372 active site 28072001373 phosphorylation site [posttranslational modification] 28072001374 intermolecular recognition site; other site 28072001375 dimerization interface [polypeptide binding]; other site 28072001376 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072001377 DNA binding residues [nucleotide binding] 28072001378 dimerization interface [polypeptide binding]; other site 28072001379 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072001380 Protein of unknown function, DUF258; Region: DUF258; pfam03193 28072001381 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072001382 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072001383 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072001384 structural tetrad; other site 28072001385 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072001386 structural tetrad; other site 28072001387 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 28072001388 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 28072001389 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 28072001390 Response regulator receiver domain; Region: Response_reg; pfam00072 28072001391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001392 active site 28072001393 phosphorylation site [posttranslational modification] 28072001394 intermolecular recognition site; other site 28072001395 dimerization interface [polypeptide binding]; other site 28072001396 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 28072001397 metal ion-dependent adhesion site (MIDAS); other site 28072001398 Protein phosphatase 2C; Region: PP2C_2; pfam13672 28072001399 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 28072001400 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072001401 substrate binding site [chemical binding]; other site 28072001402 activation loop (A-loop); other site 28072001403 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001404 binding surface 28072001405 TPR motif; other site 28072001406 TPR repeat; Region: TPR_11; pfam13414 28072001407 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001408 binding surface 28072001409 TPR motif; other site 28072001410 TPR repeat; Region: TPR_11; pfam13414 28072001411 TPR repeat; Region: TPR_11; pfam13414 28072001412 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 28072001413 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 28072001414 substrate binding site; other site 28072001415 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 28072001416 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 28072001417 NAD binding site [chemical binding]; other site 28072001418 homotetramer interface [polypeptide binding]; other site 28072001419 homodimer interface [polypeptide binding]; other site 28072001420 substrate binding site [chemical binding]; other site 28072001421 active site 28072001422 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072001423 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 28072001424 active site 28072001425 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 28072001426 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 28072001427 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 28072001428 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 28072001429 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 28072001430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072001431 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 28072001432 putative ADP-binding pocket [chemical binding]; other site 28072001433 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 28072001434 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 28072001435 Bacterial sugar transferase; Region: Bac_transf; cl00939 28072001436 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072001437 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072001438 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 28072001439 Walker A/P-loop; other site 28072001440 ATP binding site [chemical binding]; other site 28072001441 Q-loop/lid; other site 28072001442 ABC transporter signature motif; other site 28072001443 Walker B; other site 28072001444 D-loop; other site 28072001445 H-loop/switch region; other site 28072001446 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 28072001447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072001448 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072001449 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 28072001450 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072001451 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 28072001452 putative ADP-binding pocket [chemical binding]; other site 28072001453 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072001454 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072001455 active site 28072001456 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072001457 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 28072001458 active site 28072001459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072001460 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072001461 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072001462 active site 28072001463 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 28072001464 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 28072001465 Active Sites [active] 28072001466 PAS fold; Region: PAS_4; pfam08448 28072001467 PAS fold; Region: PAS_4; pfam08448 28072001468 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001469 putative active site [active] 28072001470 heme pocket [chemical binding]; other site 28072001471 PAS fold; Region: PAS_4; pfam08448 28072001472 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001473 putative active site [active] 28072001474 heme pocket [chemical binding]; other site 28072001475 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001476 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072001477 putative active site [active] 28072001478 heme pocket [chemical binding]; other site 28072001479 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001480 putative active site [active] 28072001481 heme pocket [chemical binding]; other site 28072001482 hypothetical protein; Provisional; Region: PRK13560 28072001483 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001484 putative active site [active] 28072001485 heme pocket [chemical binding]; other site 28072001486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001487 putative active site [active] 28072001488 heme pocket [chemical binding]; other site 28072001489 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001490 putative active site [active] 28072001491 heme pocket [chemical binding]; other site 28072001492 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072001493 dimer interface [polypeptide binding]; other site 28072001494 phosphorylation site [posttranslational modification] 28072001495 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001496 ATP binding site [chemical binding]; other site 28072001497 Mg2+ binding site [ion binding]; other site 28072001498 G-X-G motif; other site 28072001499 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072001500 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001501 active site 28072001502 phosphorylation site [posttranslational modification] 28072001503 intermolecular recognition site; other site 28072001504 dimerization interface [polypeptide binding]; other site 28072001505 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 28072001506 putative heme binding site [chemical binding]; other site 28072001507 Phosphotransferase enzyme family; Region: APH; pfam01636 28072001508 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 28072001509 substrate binding site [chemical binding]; other site 28072001510 Tic20-like protein; Region: Tic20; pfam09685 28072001511 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 28072001512 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 28072001513 Probable Catalytic site; other site 28072001514 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 28072001515 active site 28072001516 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 28072001517 active site 28072001518 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5550; cl17622 28072001519 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 28072001520 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072001521 HSP70 interaction site [polypeptide binding]; other site 28072001522 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 28072001523 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 28072001524 dimer interface [polypeptide binding]; other site 28072001525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072001526 catalytic residue [active] 28072001527 Predicted transcriptional regulator [Transcription]; Region: COG1959 28072001528 Transcriptional regulator; Region: Rrf2; pfam02082 28072001529 S-layer homology domain; Region: SLH; pfam00395 28072001530 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 28072001531 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 28072001532 aromatic arch; other site 28072001533 DCoH dimer interaction site [polypeptide binding]; other site 28072001534 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 28072001535 DCoH tetramer interaction site [polypeptide binding]; other site 28072001536 substrate binding site [chemical binding]; other site 28072001537 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 28072001538 D1 interface; other site 28072001539 chlorophyll binding site; other site 28072001540 pheophytin binding site; other site 28072001541 beta carotene binding site; other site 28072001542 cytochrome b559 beta interface; other site 28072001543 quinone binding site; other site 28072001544 cytochrome b559 alpha interface; other site 28072001545 protein J interface; other site 28072001546 protein H interface; other site 28072001547 protein X interface; other site 28072001548 core light harvesting protein interface; other site 28072001549 protein L interface; other site 28072001550 CP43 interface; other site 28072001551 protein T interface; other site 28072001552 Fe binding site [ion binding]; other site 28072001553 protein M interface; other site 28072001554 Mn-stabilizing polypeptide interface; other site 28072001555 bromide binding site; other site 28072001556 cytochrome c-550 interface; other site 28072001557 hypothetical protein; Provisional; Region: PRK13683 28072001558 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072001559 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 28072001560 Walker A/P-loop; other site 28072001561 ATP binding site [chemical binding]; other site 28072001562 Q-loop/lid; other site 28072001563 ABC transporter signature motif; other site 28072001564 Walker B; other site 28072001565 D-loop; other site 28072001566 H-loop/switch region; other site 28072001567 YacP-like NYN domain; Region: NYN_YacP; cl01491 28072001568 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 28072001569 Domain of unknown function (DUF814); Region: DUF814; pfam05670 28072001570 Double zinc ribbon; Region: DZR; pfam12773 28072001571 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 28072001572 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 28072001573 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072001574 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072001575 phosphopeptide binding site; other site 28072001576 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 28072001577 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 28072001578 putative active site [active] 28072001579 ribonuclease PH; Reviewed; Region: rph; PRK00173 28072001580 Ribonuclease PH; Region: RNase_PH_bact; cd11362 28072001581 hexamer interface [polypeptide binding]; other site 28072001582 active site 28072001583 adenylate kinase; Reviewed; Region: adk; PRK00279 28072001584 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 28072001585 AMP-binding site [chemical binding]; other site 28072001586 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 28072001587 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 28072001588 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated; Region: PRK07414 28072001589 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 28072001590 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 28072001591 trimer interface [polypeptide binding]; other site 28072001592 active site 28072001593 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 28072001594 catalytic motif [active] 28072001595 Zn binding site [ion binding]; other site 28072001596 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 28072001597 dimerization interface [polypeptide binding]; other site 28072001598 active site 28072001599 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 28072001600 light-harvesting-like protein 3; Provisional; Region: PLN00014 28072001601 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 28072001602 putative catalytic residue [active] 28072001603 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 28072001604 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 28072001605 hinge; other site 28072001606 active site 28072001607 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 28072001608 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 28072001609 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 28072001610 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 28072001611 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072001612 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 28072001613 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 28072001614 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072001615 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 28072001616 S-adenosylmethionine synthetase; Validated; Region: PRK05250 28072001617 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 28072001618 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 28072001619 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 28072001620 Hemerythrin-like domain; Region: Hr-like; cd12108 28072001621 Fe binding site [ion binding]; other site 28072001622 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 28072001623 Predicted membrane protein [Function unknown]; Region: COG4244 28072001624 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072001625 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072001626 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 28072001627 LanM-like proteins. LanM is a bifunctional enzyme, involved in the synthesis of class II lantibiotics. It is responsible for both the dehydration and the cyclization of the precursor-peptide during lantibiotic synthesis. The C-terminal domain shows...; Region: LanM-like; cd04792 28072001628 active site 28072001629 zinc binding site [ion binding]; other site 28072001630 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072001631 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072001632 putative active site [active] 28072001633 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072001634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072001635 Walker A/P-loop; other site 28072001636 ATP binding site [chemical binding]; other site 28072001637 Q-loop/lid; other site 28072001638 ABC transporter signature motif; other site 28072001639 Walker B; other site 28072001640 D-loop; other site 28072001641 H-loop/switch region; other site 28072001642 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 28072001643 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072001644 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072001645 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072001646 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 28072001647 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 28072001648 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 28072001649 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 28072001650 putative C-terminal domain interface [polypeptide binding]; other site 28072001651 putative GSH binding site (G-site) [chemical binding]; other site 28072001652 putative dimer interface [polypeptide binding]; other site 28072001653 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 28072001654 N-terminal domain interface [polypeptide binding]; other site 28072001655 dimer interface [polypeptide binding]; other site 28072001656 substrate binding pocket (H-site) [chemical binding]; other site 28072001657 Uncharacterized conserved protein [Function unknown]; Region: COG2135 28072001658 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 28072001659 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072001660 binding surface 28072001661 TPR motif; other site 28072001662 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 28072001663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 28072001664 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 28072001665 PBP superfamily domain; Region: PBP_like_2; cl17296 28072001666 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 28072001667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072001668 dimer interface [polypeptide binding]; other site 28072001669 conserved gate region; other site 28072001670 putative PBP binding loops; other site 28072001671 ABC-ATPase subunit interface; other site 28072001672 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 28072001673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072001674 dimer interface [polypeptide binding]; other site 28072001675 conserved gate region; other site 28072001676 putative PBP binding loops; other site 28072001677 ABC-ATPase subunit interface; other site 28072001678 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14260 28072001679 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 28072001680 Walker A/P-loop; other site 28072001681 ATP binding site [chemical binding]; other site 28072001682 Q-loop/lid; other site 28072001683 ABC transporter signature motif; other site 28072001684 Walker B; other site 28072001685 D-loop; other site 28072001686 H-loop/switch region; other site 28072001687 DnaJ domain; Region: DnaJ; pfam00226 28072001688 HSP70 interaction site [polypeptide binding]; other site 28072001689 EVE domain; Region: EVE; cl00728 28072001690 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 28072001691 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 28072001692 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 28072001693 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 28072001694 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 28072001695 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 28072001696 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 28072001697 active site 28072001698 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 28072001699 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 28072001700 substrate binding site [chemical binding]; other site 28072001701 ATP binding site [chemical binding]; other site 28072001702 Predicted methyltransferases [General function prediction only]; Region: COG0313 28072001703 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 28072001704 putative SAM binding site [chemical binding]; other site 28072001705 putative homodimer interface [polypeptide binding]; other site 28072001706 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072001707 putative active site [active] 28072001708 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 28072001709 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 28072001710 trmE is a tRNA modification GTPase; Region: trmE; cd04164 28072001711 G1 box; other site 28072001712 GTP/Mg2+ binding site [chemical binding]; other site 28072001713 Switch I region; other site 28072001714 G2 box; other site 28072001715 Switch II region; other site 28072001716 G3 box; other site 28072001717 G4 box; other site 28072001718 G5 box; other site 28072001719 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 28072001720 C factor cell-cell signaling protein; Provisional; Region: PRK09009 28072001721 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 28072001722 NADP binding site [chemical binding]; other site 28072001723 homodimer interface [polypeptide binding]; other site 28072001724 active site 28072001725 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072001726 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072001727 DevC protein; Region: devC; TIGR01185 28072001728 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072001729 FtsX-like permease family; Region: FtsX; pfam02687 28072001730 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072001731 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072001732 Walker A/P-loop; other site 28072001733 ATP binding site [chemical binding]; other site 28072001734 Q-loop/lid; other site 28072001735 ABC transporter signature motif; other site 28072001736 Walker B; other site 28072001737 D-loop; other site 28072001738 H-loop/switch region; other site 28072001739 photosystem II protein Psb27; Region: PS_II_psb27; TIGR03044 28072001740 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072001741 putative recombination protein RecB; Provisional; Region: PRK13909 28072001742 DNA polymerase I; Provisional; Region: PRK05755 28072001743 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 28072001744 active site 28072001745 metal binding site 1 [ion binding]; metal-binding site 28072001746 putative 5' ssDNA interaction site; other site 28072001747 metal binding site 3; metal-binding site 28072001748 metal binding site 2 [ion binding]; metal-binding site 28072001749 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 28072001750 putative DNA binding site [nucleotide binding]; other site 28072001751 putative metal binding site [ion binding]; other site 28072001752 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 28072001753 active site 28072001754 catalytic site [active] 28072001755 substrate binding site [chemical binding]; other site 28072001756 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 28072001757 active site 28072001758 DNA binding site [nucleotide binding] 28072001759 catalytic site [active] 28072001760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072001761 Probable transposase; Region: OrfB_IS605; pfam01385 28072001762 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072001763 Uncharacterized conserved protein (DUF2349); Region: DUF2349; pfam09779 28072001764 Transposase IS200 like; Region: Y1_Tnp; pfam01797 28072001765 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 28072001766 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 28072001767 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 28072001768 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 28072001769 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072001770 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 28072001771 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072001772 motif II; other site 28072001773 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 28072001774 recombination protein F; Reviewed; Region: recF; PRK00064 28072001775 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 28072001776 Walker A/P-loop; other site 28072001777 ATP binding site [chemical binding]; other site 28072001778 Q-loop/lid; other site 28072001779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072001780 ABC transporter signature motif; other site 28072001781 Walker B; other site 28072001782 D-loop; other site 28072001783 H-loop/switch region; other site 28072001784 glycogen synthase; Provisional; Region: glgA; PRK00654 28072001785 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 28072001786 ADP-binding pocket [chemical binding]; other site 28072001787 homodimer interface [polypeptide binding]; other site 28072001788 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 28072001789 Response regulator receiver domain; Region: Response_reg; pfam00072 28072001790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001791 active site 28072001792 phosphorylation site [posttranslational modification] 28072001793 intermolecular recognition site; other site 28072001794 dimerization interface [polypeptide binding]; other site 28072001795 Response regulator receiver domain; Region: Response_reg; pfam00072 28072001796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001797 active site 28072001798 phosphorylation site [posttranslational modification] 28072001799 intermolecular recognition site; other site 28072001800 dimerization interface [polypeptide binding]; other site 28072001801 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 28072001802 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072001803 dimerization interface [polypeptide binding]; other site 28072001804 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 28072001805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 28072001806 dimer interface [polypeptide binding]; other site 28072001807 putative CheW interface [polypeptide binding]; other site 28072001808 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 28072001809 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072001810 putative binding surface; other site 28072001811 active site 28072001812 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 28072001813 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 28072001814 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001815 ATP binding site [chemical binding]; other site 28072001816 Mg2+ binding site [ion binding]; other site 28072001817 G-X-G motif; other site 28072001818 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 28072001819 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072001820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001821 active site 28072001822 phosphorylation site [posttranslational modification] 28072001823 intermolecular recognition site; other site 28072001824 dimerization interface [polypeptide binding]; other site 28072001825 amino acid transporter; Region: 2A0306; TIGR00909 28072001826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 28072001827 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072001828 putative active site [active] 28072001829 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 28072001830 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072001831 ATP binding site [chemical binding]; other site 28072001832 putative Mg++ binding site [ion binding]; other site 28072001833 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072001834 nucleotide binding region [chemical binding]; other site 28072001835 ATP-binding site [chemical binding]; other site 28072001836 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 28072001837 HRDC domain; Region: HRDC; pfam00570 28072001838 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 28072001839 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 28072001840 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 28072001841 acyl-activating enzyme (AAE) consensus motif; other site 28072001842 putative AMP binding site [chemical binding]; other site 28072001843 putative active site [active] 28072001844 putative CoA binding site [chemical binding]; other site 28072001845 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 28072001846 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 28072001847 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 28072001848 E3 interaction surface; other site 28072001849 lipoyl attachment site [posttranslational modification]; other site 28072001850 e3 binding domain; Region: E3_binding; pfam02817 28072001851 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 28072001852 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 28072001853 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072001854 active site 28072001855 ATP binding site [chemical binding]; other site 28072001856 substrate binding site [chemical binding]; other site 28072001857 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072001858 substrate binding site [chemical binding]; other site 28072001859 activation loop (A-loop); other site 28072001860 activation loop (A-loop); other site 28072001861 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072001862 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072001863 active site 28072001864 ATP binding site [chemical binding]; other site 28072001865 substrate binding site [chemical binding]; other site 28072001866 activation loop (A-loop); other site 28072001867 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072001868 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072001869 structural tetrad; other site 28072001870 Calx-beta domain; Region: Calx-beta; cl02522 28072001871 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072001872 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 28072001873 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 28072001874 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 28072001875 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 28072001876 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 28072001877 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 28072001878 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 28072001879 putative NADP binding site [chemical binding]; other site 28072001880 putative substrate binding site [chemical binding]; other site 28072001881 active site 28072001882 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 28072001883 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072001884 FeS/SAM binding site; other site 28072001885 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 28072001886 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 28072001887 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 28072001888 substrate binding pocket [chemical binding]; other site 28072001889 substrate-Mg2+ binding site; other site 28072001890 aspartate-rich region 1; other site 28072001891 aspartate-rich region 2; other site 28072001892 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 28072001893 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 28072001894 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 28072001895 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 28072001896 [2Fe-2S] cluster binding site [ion binding]; other site 28072001897 PAS domain S-box; Region: sensory_box; TIGR00229 28072001898 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001899 putative active site [active] 28072001900 heme pocket [chemical binding]; other site 28072001901 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072001902 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072001903 putative active site [active] 28072001904 heme pocket [chemical binding]; other site 28072001905 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072001906 GAF domain; Region: GAF; pfam01590 28072001907 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072001908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072001909 dimer interface [polypeptide binding]; other site 28072001910 phosphorylation site [posttranslational modification] 28072001911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001912 ATP binding site [chemical binding]; other site 28072001913 Mg2+ binding site [ion binding]; other site 28072001914 G-X-G motif; other site 28072001915 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072001916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001917 active site 28072001918 phosphorylation site [posttranslational modification] 28072001919 intermolecular recognition site; other site 28072001920 dimerization interface [polypeptide binding]; other site 28072001921 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 28072001922 DNA polymerase III subunit delta; Validated; Region: PRK07452 28072001923 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 28072001924 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 28072001925 Predicted membrane protein/domain [Function unknown]; Region: COG1714 28072001926 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 28072001927 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 28072001928 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 28072001929 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 28072001930 putative dimer interface [polypeptide binding]; other site 28072001931 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 28072001932 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 28072001933 nucleotide binding site [chemical binding]; other site 28072001934 NEF interaction site [polypeptide binding]; other site 28072001935 SBD interface [polypeptide binding]; other site 28072001936 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 28072001937 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 28072001938 N- and C-terminal domain interface [polypeptide binding]; other site 28072001939 active site 28072001940 MgATP binding site [chemical binding]; other site 28072001941 catalytic site [active] 28072001942 metal binding site [ion binding]; metal-binding site 28072001943 glycerol binding site [chemical binding]; other site 28072001944 homotetramer interface [polypeptide binding]; other site 28072001945 homodimer interface [polypeptide binding]; other site 28072001946 FBP binding site [chemical binding]; other site 28072001947 protein IIAGlc interface [polypeptide binding]; other site 28072001948 calcium/proton exchanger (cax); Region: cax; TIGR00378 28072001949 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 28072001950 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 28072001951 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 28072001952 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 28072001953 active site 28072001954 catalytic site [active] 28072001955 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 28072001956 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072001957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072001958 active site 28072001959 phosphorylation site [posttranslational modification] 28072001960 intermolecular recognition site; other site 28072001961 dimerization interface [polypeptide binding]; other site 28072001962 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072001963 DNA binding residues [nucleotide binding] 28072001964 dimerization interface [polypeptide binding]; other site 28072001965 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072001966 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 28072001967 dimer interface [polypeptide binding]; other site 28072001968 phosphorylation site [posttranslational modification] 28072001969 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072001970 ATP binding site [chemical binding]; other site 28072001971 Mg2+ binding site [ion binding]; other site 28072001972 G-X-G motif; other site 28072001973 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 28072001974 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 28072001975 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072001976 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072001977 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 28072001978 K+-transporting ATPase, c chain; Region: KdpC; cl00944 28072001979 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 28072001980 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072001981 active site 28072001982 KGK domain; Region: KGK; pfam08872 28072001983 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 28072001984 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072001985 G1 box; other site 28072001986 GTP/Mg2+ binding site [chemical binding]; other site 28072001987 G2 box; other site 28072001988 Switch I region; other site 28072001989 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072001990 G3 box; other site 28072001991 Switch II region; other site 28072001992 G4 box; other site 28072001993 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 28072001994 substrate binding site [chemical binding]; other site 28072001995 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 28072001996 Bacterial Ig-like domain; Region: Big_5; pfam13205 28072001997 MG2 domain; Region: A2M_N; pfam01835 28072001998 Alpha-2-macroglobulin family; Region: A2M; pfam00207 28072001999 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 28072002000 surface patch; other site 28072002001 specificity defining residues; other site 28072002002 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 28072002003 Transglycosylase; Region: Transgly; pfam00912 28072002004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 28072002005 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 28072002006 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 28072002007 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 28072002008 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 28072002009 putative dimer interface [polypeptide binding]; other site 28072002010 N-terminal domain interface [polypeptide binding]; other site 28072002011 putative substrate binding pocket (H-site) [chemical binding]; other site 28072002012 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 28072002013 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 28072002014 active site 28072002015 Na/Ca binding site [ion binding]; other site 28072002016 catalytic site [active] 28072002017 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 28072002018 Putative ammonia monooxygenase; Region: AmoA; pfam05145 28072002019 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 28072002020 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 28072002021 Protein of unknown function (DUF1838); Region: DUF1838; pfam08894 28072002022 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072002023 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002024 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002025 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 28072002026 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 28072002027 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 28072002028 putative active site [active] 28072002029 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 28072002030 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 28072002031 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072002032 catalytic residue [active] 28072002033 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 28072002034 PLD-like domain; Region: PLDc_2; pfam13091 28072002035 putative active site [active] 28072002036 catalytic site [active] 28072002037 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 28072002038 PLD-like domain; Region: PLDc_2; pfam13091 28072002039 putative active site [active] 28072002040 catalytic site [active] 28072002041 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 28072002042 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 28072002043 Putative cation transport regulator [General function prediction only]; Region: ChaB; COG4572 28072002044 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 28072002045 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 28072002046 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 28072002047 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 28072002048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072002049 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 28072002050 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072002051 motif II; other site 28072002052 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 28072002053 SmpB-tmRNA interface; other site 28072002054 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072002055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002056 active site 28072002057 phosphorylation site [posttranslational modification] 28072002058 intermolecular recognition site; other site 28072002059 dimerization interface [polypeptide binding]; other site 28072002060 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072002061 DNA binding residues [nucleotide binding] 28072002062 dimerization interface [polypeptide binding]; other site 28072002063 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 28072002064 Low molecular weight phosphatase family; Region: LMWPc; cd00115 28072002065 active site 28072002066 hydrolase, alpha/beta fold family protein; Region: PLN02824 28072002067 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072002068 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072002069 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 28072002070 active site 28072002071 catalytic tetrad [active] 28072002072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4293 28072002073 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 28072002074 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 28072002075 Predicted ATPase [General function prediction only]; Region: COG4637 28072002076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002077 Walker A/P-loop; other site 28072002078 ATP binding site [chemical binding]; other site 28072002079 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 28072002080 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072002081 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072002082 Walker A/P-loop; other site 28072002083 ATP binding site [chemical binding]; other site 28072002084 Q-loop/lid; other site 28072002085 ABC transporter signature motif; other site 28072002086 Walker B; other site 28072002087 D-loop; other site 28072002088 H-loop/switch region; other site 28072002089 DevC protein; Region: devC; TIGR01185 28072002090 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072002091 FtsX-like permease family; Region: FtsX; pfam02687 28072002092 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 28072002093 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072002094 E3 interaction surface; other site 28072002095 lipoyl attachment site [posttranslational modification]; other site 28072002096 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072002097 Phytochelatin synthase; Region: Phytochelatin; pfam05023 28072002098 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 28072002099 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 28072002100 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 28072002101 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 28072002102 Walker A/P-loop; other site 28072002103 ATP binding site [chemical binding]; other site 28072002104 Q-loop/lid; other site 28072002105 ABC transporter signature motif; other site 28072002106 Walker B; other site 28072002107 D-loop; other site 28072002108 H-loop/switch region; other site 28072002109 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 28072002110 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 28072002111 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 28072002112 Walker A/P-loop; other site 28072002113 ATP binding site [chemical binding]; other site 28072002114 Q-loop/lid; other site 28072002115 ABC transporter signature motif; other site 28072002116 Walker B; other site 28072002117 D-loop; other site 28072002118 H-loop/switch region; other site 28072002119 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072002120 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072002121 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072002122 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072002123 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 28072002124 tartrate dehydrogenase; Region: TTC; TIGR02089 28072002125 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 28072002126 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 28072002127 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 28072002128 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 28072002129 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 28072002130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 28072002131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072002132 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 28072002133 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 28072002134 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 28072002135 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 28072002136 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 28072002137 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 28072002138 active site 28072002139 dimer interface [polypeptide binding]; other site 28072002140 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 28072002141 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 28072002142 ATP adenylyltransferase; Region: ATP_transf; pfam09830 28072002143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072002144 dimer interface [polypeptide binding]; other site 28072002145 conserved gate region; other site 28072002146 putative PBP binding loops; other site 28072002147 ABC-ATPase subunit interface; other site 28072002148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 28072002149 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 28072002150 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 28072002151 Resolvase, N terminal domain; Region: Resolvase; smart00857 28072002152 catalytic residues [active] 28072002153 Recombinase; Region: Recombinase; pfam07508 28072002154 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 28072002155 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 28072002156 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072002157 dimer interface [polypeptide binding]; other site 28072002158 putative metal binding site [ion binding]; other site 28072002159 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072002160 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 28072002161 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 28072002162 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 28072002163 shikimate binding site; other site 28072002164 NAD(P) binding site [chemical binding]; other site 28072002165 MraW methylase family; Region: Methyltransf_5; cl17771 28072002166 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 28072002167 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 28072002168 NAD(P)H-quinone oxidoreductase subunit H; Validated; Region: PRK07415 28072002169 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072002170 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072002171 O-succinylbenzoic acid--CoA ligase; Reviewed; Region: PRK07445 28072002172 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 28072002173 acyl-activating enzyme (AAE) consensus motif; other site 28072002174 putative AMP binding site [chemical binding]; other site 28072002175 putative active site [active] 28072002176 putative CoA binding site [chemical binding]; other site 28072002177 O-succinylbenzoate synthase; Provisional; Region: PRK02714 28072002178 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 28072002179 active site 28072002180 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK07419 28072002181 UbiA prenyltransferase family; Region: UbiA; pfam01040 28072002182 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 28072002183 chorismate binding enzyme; Region: Chorismate_bind; cl10555 28072002184 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 28072002185 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 28072002186 putative catalytic cysteine [active] 28072002187 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 28072002188 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072002189 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 28072002190 catalytic triad [active] 28072002191 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 28072002192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072002193 NAD(P) binding site [chemical binding]; other site 28072002194 active site 28072002195 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 28072002196 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 28072002197 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 28072002198 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 28072002199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 28072002200 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072002201 dimerization interface [polypeptide binding]; other site 28072002202 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072002203 putative active site [active] 28072002204 heme pocket [chemical binding]; other site 28072002205 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072002206 dimer interface [polypeptide binding]; other site 28072002207 phosphorylation site [posttranslational modification] 28072002208 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002209 ATP binding site [chemical binding]; other site 28072002210 Mg2+ binding site [ion binding]; other site 28072002211 G-X-G motif; other site 28072002212 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 28072002213 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 28072002214 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072002215 Walker A motif; other site 28072002216 ATP binding site [chemical binding]; other site 28072002217 Walker B motif; other site 28072002218 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 28072002219 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 28072002220 nucleotide binding site/active site [active] 28072002221 HIT family signature motif; other site 28072002222 catalytic residue [active] 28072002223 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 28072002224 protein I interface; other site 28072002225 D2 interface; other site 28072002226 protein T interface; other site 28072002227 chlorophyll binding site; other site 28072002228 beta carotene binding site; other site 28072002229 pheophytin binding site; other site 28072002230 manganese-stabilizing polypeptide interface; other site 28072002231 CP43 interface; other site 28072002232 protein L interface; other site 28072002233 oxygen evolving complex binding site; other site 28072002234 bromide binding site; other site 28072002235 quinone binding site; other site 28072002236 Fe binding site [ion binding]; other site 28072002237 core light harvesting interface; other site 28072002238 cytochrome b559 alpha subunit interface; other site 28072002239 cytochrome c-550 interface; other site 28072002240 protein J interface; other site 28072002241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072002242 Coenzyme A binding pocket [chemical binding]; other site 28072002243 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 28072002244 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 28072002245 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 28072002246 active site 28072002247 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 28072002248 dimer interface [polypeptide binding]; other site 28072002249 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 28072002250 Ligand Binding Site [chemical binding]; other site 28072002251 Molecular Tunnel; other site 28072002252 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 28072002253 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 28072002254 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072002255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002256 Walker A/P-loop; other site 28072002257 ATP binding site [chemical binding]; other site 28072002258 Q-loop/lid; other site 28072002259 ABC transporter signature motif; other site 28072002260 Walker B; other site 28072002261 D-loop; other site 28072002262 H-loop/switch region; other site 28072002263 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK07432 28072002264 Caspase domain; Region: Peptidase_C14; pfam00656 28072002265 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 28072002266 ATP-sulfurylase; Region: ATPS; cd00517 28072002267 active site 28072002268 HXXH motif; other site 28072002269 flexible loop; other site 28072002270 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 28072002271 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 28072002272 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072002273 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002274 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002275 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002276 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002277 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002278 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 28072002279 putative hexamer interface [polypeptide binding]; other site 28072002280 putative hexagonal pore; other site 28072002281 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 28072002282 Hexamer interface [polypeptide binding]; other site 28072002283 Hexagonal pore residue; other site 28072002284 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 28072002285 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072002286 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072002287 phosphopeptide binding site; other site 28072002288 PAS domain S-box; Region: sensory_box; TIGR00229 28072002289 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072002290 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072002291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072002292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072002293 metal binding site [ion binding]; metal-binding site 28072002294 active site 28072002295 I-site; other site 28072002296 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 28072002297 NB-ARC domain; Region: NB-ARC; pfam00931 28072002298 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072002299 structural tetrad; other site 28072002300 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072002301 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072002302 structural tetrad; other site 28072002303 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 28072002304 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 28072002305 UPF0489 domain; Region: UPF0489; pfam12640 28072002306 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072002307 binding surface 28072002308 TPR motif; other site 28072002309 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 28072002310 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 28072002311 FAD binding domain; Region: FAD_binding_4; pfam01565 28072002312 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 28072002313 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072002314 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072002315 phosphopeptide binding site; other site 28072002316 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072002317 GAF domain; Region: GAF; pfam01590 28072002318 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 28072002319 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072002320 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072002321 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072002322 bacteriocin-type transport-associated protein; Region: cyc_nuc_ocin; TIGR03896 28072002323 ligand binding site [chemical binding]; other site 28072002324 flexible hinge region; other site 28072002325 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072002326 ligand binding site [chemical binding]; other site 28072002327 flexible hinge region; other site 28072002328 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 28072002329 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 28072002330 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 28072002331 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 28072002332 putative active site [active] 28072002333 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072002334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002335 Walker A/P-loop; other site 28072002336 ATP binding site [chemical binding]; other site 28072002337 Q-loop/lid; other site 28072002338 ABC transporter signature motif; other site 28072002339 Walker B; other site 28072002340 D-loop; other site 28072002341 H-loop/switch region; other site 28072002342 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 28072002343 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072002344 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002345 Walker A/P-loop; other site 28072002346 ATP binding site [chemical binding]; other site 28072002347 Q-loop/lid; other site 28072002348 ABC transporter signature motif; other site 28072002349 Walker B; other site 28072002350 D-loop; other site 28072002351 H-loop/switch region; other site 28072002352 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 28072002353 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 28072002354 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 28072002355 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072002356 FeS/SAM binding site; other site 28072002357 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 28072002358 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 28072002359 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 28072002360 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 28072002361 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 28072002362 TfuA-like protein; Region: TfuA; pfam07812 28072002363 Uncharacterized conserved protein [Function unknown]; Region: COG1944 28072002364 YcaO-like family; Region: YcaO; pfam02624 28072002365 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 28072002366 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072002367 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 28072002368 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 28072002369 Surface antigen; Region: Bac_surface_Ag; pfam01103 28072002370 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 28072002371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 28072002372 DNA-binding site [nucleotide binding]; DNA binding site 28072002373 UTRA domain; Region: UTRA; pfam07702 28072002374 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnG; COG3624 28072002375 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 28072002376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 28072002377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072002378 Coenzyme A binding pocket [chemical binding]; other site 28072002379 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 28072002380 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 28072002381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072002382 active site 28072002383 metal binding site [ion binding]; metal-binding site 28072002384 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 28072002385 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072002386 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 28072002387 active site 28072002388 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 28072002389 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 28072002390 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 28072002391 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 28072002392 Walker A/P-loop; other site 28072002393 ATP binding site [chemical binding]; other site 28072002394 Q-loop/lid; other site 28072002395 ABC transporter signature motif; other site 28072002396 Walker B; other site 28072002397 D-loop; other site 28072002398 H-loop/switch region; other site 28072002399 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 28072002400 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 28072002401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002402 Walker A/P-loop; other site 28072002403 ATP binding site [chemical binding]; other site 28072002404 Q-loop/lid; other site 28072002405 ABC transporter signature motif; other site 28072002406 Walker B; other site 28072002407 D-loop; other site 28072002408 H-loop/switch region; other site 28072002409 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 28072002410 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072002411 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 28072002412 active site 28072002413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072002414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072002415 metal binding site [ion binding]; metal-binding site 28072002416 active site 28072002417 I-site; other site 28072002418 Response regulator receiver domain; Region: Response_reg; pfam00072 28072002419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002420 active site 28072002421 phosphorylation site [posttranslational modification] 28072002422 intermolecular recognition site; other site 28072002423 dimerization interface [polypeptide binding]; other site 28072002424 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 28072002425 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 28072002426 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072002427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002428 Q-loop/lid; other site 28072002429 ABC transporter signature motif; other site 28072002430 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 28072002431 TrkA-N domain; Region: TrkA_N; pfam02254 28072002432 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 28072002433 TrkA-N domain; Region: TrkA_N; pfam02254 28072002434 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072002435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002436 active site 28072002437 phosphorylation site [posttranslational modification] 28072002438 intermolecular recognition site; other site 28072002439 dimerization interface [polypeptide binding]; other site 28072002440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072002441 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002442 ATP binding site [chemical binding]; other site 28072002443 Mg2+ binding site [ion binding]; other site 28072002444 G-X-G motif; other site 28072002445 PAS fold; Region: PAS_4; pfam08448 28072002446 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072002447 putative active site [active] 28072002448 heme pocket [chemical binding]; other site 28072002449 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072002450 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072002451 PAS domain S-box; Region: sensory_box; TIGR00229 28072002452 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072002453 putative active site [active] 28072002454 heme pocket [chemical binding]; other site 28072002455 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072002456 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072002457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 28072002458 Histidine kinase; Region: HisKA_2; pfam07568 28072002459 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002460 ATP binding site [chemical binding]; other site 28072002461 Mg2+ binding site [ion binding]; other site 28072002462 G-X-G motif; other site 28072002463 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 28072002464 catalytic core [active] 28072002465 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 28072002466 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 28072002467 methionine sulfoxide reductase A; Provisional; Region: PRK13014 28072002468 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 28072002469 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 28072002470 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 28072002471 Cysteine-rich domain; Region: CCG; pfam02754 28072002472 Cysteine-rich domain; Region: CCG; pfam02754 28072002473 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 28072002474 FAD binding domain; Region: FAD_binding_4; pfam01565 28072002475 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 28072002476 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072002477 FeS/SAM binding site; other site 28072002478 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 28072002479 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 28072002480 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072002481 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072002482 S-adenosylmethionine binding site [chemical binding]; other site 28072002483 Response regulator receiver domain; Region: Response_reg; pfam00072 28072002484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002485 active site 28072002486 phosphorylation site [posttranslational modification] 28072002487 intermolecular recognition site; other site 28072002488 dimerization interface [polypeptide binding]; other site 28072002489 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 28072002490 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072002491 S-adenosylmethionine binding site [chemical binding]; other site 28072002492 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 28072002493 S-layer homology domain; Region: SLH; pfam00395 28072002494 S-layer homology domain; Region: SLH; pfam00395 28072002495 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072002496 putative cation:proton antiport protein; Provisional; Region: PRK10669 28072002497 TrkA-N domain; Region: TrkA_N; pfam02254 28072002498 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 28072002499 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 28072002500 dimer interface [polypeptide binding]; other site 28072002501 PYR/PP interface [polypeptide binding]; other site 28072002502 TPP binding site [chemical binding]; other site 28072002503 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 28072002504 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 28072002505 TPP-binding site [chemical binding]; other site 28072002506 dimer interface [polypeptide binding]; other site 28072002507 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 28072002508 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 28072002509 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 28072002510 NAD(P) binding site [chemical binding]; other site 28072002511 short chain dehydrogenase; Provisional; Region: PRK08303 28072002512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072002513 NAD(P) binding site [chemical binding]; other site 28072002514 active site 28072002515 AAA-like domain; Region: AAA_10; pfam12846 28072002516 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 28072002517 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072002518 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 28072002519 feedback inhibition sensing region; other site 28072002520 homohexameric interface [polypeptide binding]; other site 28072002521 nucleotide binding site [chemical binding]; other site 28072002522 N-acetyl-L-glutamate binding site [chemical binding]; other site 28072002523 shikimate kinase; Reviewed; Region: aroK; PRK00131 28072002524 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 28072002525 ADP binding site [chemical binding]; other site 28072002526 magnesium binding site [ion binding]; other site 28072002527 putative shikimate binding site; other site 28072002528 AAA ATPase domain; Region: AAA_16; pfam13191 28072002529 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 28072002530 aromatic acid decarboxylase; Validated; Region: PRK05920 28072002531 Flavoprotein; Region: Flavoprotein; pfam02441 28072002532 Exoribonuclease R [Transcription]; Region: VacB; COG0557 28072002533 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 28072002534 RNB domain; Region: RNB; pfam00773 28072002535 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 28072002536 RNA binding site [nucleotide binding]; other site 28072002537 Clp protease; Region: CLP_protease; pfam00574 28072002538 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 28072002539 oligomer interface [polypeptide binding]; other site 28072002540 active site residues [active] 28072002541 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 28072002542 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 28072002543 catalytic residues [active] 28072002544 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072002545 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 28072002546 ligand binding site [chemical binding]; other site 28072002547 dimer interface [polypeptide binding]; other site 28072002548 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 28072002549 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 28072002550 GTP binding site; other site 28072002551 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 28072002552 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 28072002553 putative ligand binding site [chemical binding]; other site 28072002554 DDE superfamily endonuclease; Region: DDE_5; cl17874 28072002555 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072002556 dimer interface [polypeptide binding]; other site 28072002557 phosphorylation site [posttranslational modification] 28072002558 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002559 ATP binding site [chemical binding]; other site 28072002560 Mg2+ binding site [ion binding]; other site 28072002561 G-X-G motif; other site 28072002562 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072002563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002564 active site 28072002565 phosphorylation site [posttranslational modification] 28072002566 intermolecular recognition site; other site 28072002567 dimerization interface [polypeptide binding]; other site 28072002568 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 28072002569 Ferritin-like domain; Region: Ferritin; pfam00210 28072002570 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 28072002571 dinuclear metal binding motif [ion binding]; other site 28072002572 cobalt transport protein CbiM; Validated; Region: PRK08319 28072002573 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 28072002574 ABC-type cobalt transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiN; COG1930 28072002575 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 28072002576 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072002577 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 28072002578 Walker A/P-loop; other site 28072002579 ATP binding site [chemical binding]; other site 28072002580 Q-loop/lid; other site 28072002581 ABC transporter signature motif; other site 28072002582 Walker B; other site 28072002583 D-loop; other site 28072002584 H-loop/switch region; other site 28072002585 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; COG0310 28072002586 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 28072002587 PDGLE domain; Region: PDGLE; pfam13190 28072002588 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 28072002589 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072002590 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 28072002591 Walker A/P-loop; other site 28072002592 ATP binding site [chemical binding]; other site 28072002593 Q-loop/lid; other site 28072002594 ABC transporter signature motif; other site 28072002595 Walker B; other site 28072002596 D-loop; other site 28072002597 H-loop/switch region; other site 28072002598 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 28072002599 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072002600 active site 28072002601 motif I; other site 28072002602 motif II; other site 28072002603 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 28072002604 DALR anticodon binding domain; Region: DALR_1; smart00836 28072002605 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072002606 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 28072002607 putative switch regulator; other site 28072002608 non-specific DNA interactions [nucleotide binding]; other site 28072002609 DNA binding site [nucleotide binding] 28072002610 sequence specific DNA binding site [nucleotide binding]; other site 28072002611 putative cAMP binding site [chemical binding]; other site 28072002612 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 28072002613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 28072002614 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 28072002615 putative dimerization interface [polypeptide binding]; other site 28072002616 Predicted membrane protein [Function unknown]; Region: COG4094 28072002617 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 28072002618 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072002619 catalytic residues [active] 28072002620 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 28072002621 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 28072002622 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072002623 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 28072002624 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK02546 28072002625 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072002626 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072002627 putative active site [active] 28072002628 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072002629 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072002630 putative active site [active] 28072002631 Predicted transcriptional regulator [Transcription]; Region: COG3905 28072002632 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 28072002633 Uncharacterized conserved protein [Function unknown]; Region: COG2442 28072002634 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 28072002635 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 28072002636 active site 28072002637 substrate binding site [chemical binding]; other site 28072002638 metal binding site [ion binding]; metal-binding site 28072002639 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072002640 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072002641 active site 28072002642 ATP binding site [chemical binding]; other site 28072002643 substrate binding site [chemical binding]; other site 28072002644 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072002645 substrate binding site [chemical binding]; other site 28072002646 activation loop (A-loop); other site 28072002647 activation loop (A-loop); other site 28072002648 AAA ATPase domain; Region: AAA_16; pfam13191 28072002649 Predicted ATPase [General function prediction only]; Region: COG3899 28072002650 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072002651 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072002652 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072002653 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072002654 dimer interface [polypeptide binding]; other site 28072002655 phosphorylation site [posttranslational modification] 28072002656 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002657 ATP binding site [chemical binding]; other site 28072002658 Mg2+ binding site [ion binding]; other site 28072002659 G-X-G motif; other site 28072002660 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072002661 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 28072002662 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 28072002663 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 28072002664 MarR family; Region: MarR; pfam01047 28072002665 H+ Antiporter protein; Region: 2A0121; TIGR00900 28072002666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072002667 putative substrate translocation pore; other site 28072002668 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072002669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002670 active site 28072002671 phosphorylation site [posttranslational modification] 28072002672 intermolecular recognition site; other site 28072002673 dimerization interface [polypeptide binding]; other site 28072002674 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072002675 DNA binding site [nucleotide binding] 28072002676 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072002677 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072002678 dimer interface [polypeptide binding]; other site 28072002679 phosphorylation site [posttranslational modification] 28072002680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002681 ATP binding site [chemical binding]; other site 28072002682 Mg2+ binding site [ion binding]; other site 28072002683 G-X-G motif; other site 28072002684 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 28072002685 PhoU domain; Region: PhoU; pfam01895 28072002686 PhoU domain; Region: PhoU; pfam01895 28072002687 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072002688 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072002689 ligand binding site [chemical binding]; other site 28072002690 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 28072002691 putative switch regulator; other site 28072002692 non-specific DNA interactions [nucleotide binding]; other site 28072002693 DNA binding site [nucleotide binding] 28072002694 sequence specific DNA binding site [nucleotide binding]; other site 28072002695 putative cAMP binding site [chemical binding]; other site 28072002696 S-layer homology domain; Region: SLH; pfam00395 28072002697 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 28072002698 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 28072002699 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072002700 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 28072002701 Predicted membrane protein [Function unknown]; Region: COG5305 28072002702 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 28072002703 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 28072002704 Ligand binding site; other site 28072002705 Putative Catalytic site; other site 28072002706 DXD motif; other site 28072002707 Predicted membrane protein [Function unknown]; Region: COG2246 28072002708 GtrA-like protein; Region: GtrA; pfam04138 28072002709 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072002710 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072002711 FO synthase subunit 2; Reviewed; Region: PRK07360 28072002712 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072002713 FeS/SAM binding site; other site 28072002714 Predicted protease of the Abi (CAAX) family [General function prediction only]; Region: COG4449 28072002715 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 28072002716 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 28072002717 UV-endonuclease UvdE; Region: UvdE; cl10036 28072002718 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 28072002719 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 28072002720 nucleotide binding site [chemical binding]; other site 28072002721 putative NEF/HSP70 interaction site [polypeptide binding]; other site 28072002722 SBD interface [polypeptide binding]; other site 28072002723 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072002724 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072002725 S-adenosylmethionine binding site [chemical binding]; other site 28072002726 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072002727 active site 28072002728 metal binding site [ion binding]; metal-binding site 28072002729 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072002730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002731 Walker A/P-loop; other site 28072002732 ATP binding site [chemical binding]; other site 28072002733 Q-loop/lid; other site 28072002734 ABC transporter signature motif; other site 28072002735 Walker B; other site 28072002736 D-loop; other site 28072002737 H-loop/switch region; other site 28072002738 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072002739 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072002740 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072002741 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072002742 active site 28072002743 substrate binding site [chemical binding]; other site 28072002744 ATP binding site [chemical binding]; other site 28072002745 activation loop (A-loop); other site 28072002746 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072002747 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 28072002748 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 28072002749 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 28072002750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002751 Walker A/P-loop; other site 28072002752 ATP binding site [chemical binding]; other site 28072002753 Q-loop/lid; other site 28072002754 ABC transporter signature motif; other site 28072002755 Walker B; other site 28072002756 D-loop; other site 28072002757 H-loop/switch region; other site 28072002758 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 28072002759 ABC1 family; Region: ABC1; pfam03109 28072002760 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 28072002761 active site 28072002762 ATP binding site [chemical binding]; other site 28072002763 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 28072002764 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 28072002765 Substrate binding site; other site 28072002766 Cupin domain; Region: Cupin_2; cl17218 28072002767 Transcriptional regulator [Transcription]; Region: LytR; COG1316 28072002768 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 28072002769 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002770 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072002771 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002772 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002773 integral membrane protein MviN; Region: mviN; TIGR01695 28072002774 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 28072002775 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072002776 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072002777 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 28072002778 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 28072002779 Multicopper oxidase; Region: Cu-oxidase; pfam00394 28072002780 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 28072002781 Predicted metal-binding protein [General function prediction only]; Region: COG3019 28072002782 flavodoxin FldA; Validated; Region: PRK09267 28072002783 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 28072002784 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072002785 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072002786 motif II; other site 28072002787 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 28072002788 Protein export membrane protein; Region: SecD_SecF; cl14618 28072002789 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 28072002790 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 28072002791 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072002792 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072002793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002794 active site 28072002795 phosphorylation site [posttranslational modification] 28072002796 intermolecular recognition site; other site 28072002797 dimerization interface [polypeptide binding]; other site 28072002798 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072002799 DNA binding site [nucleotide binding] 28072002800 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 28072002801 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072002802 dimer interface [polypeptide binding]; other site 28072002803 phosphorylation site [posttranslational modification] 28072002804 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002805 ATP binding site [chemical binding]; other site 28072002806 Mg2+ binding site [ion binding]; other site 28072002807 G-X-G motif; other site 28072002808 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 28072002809 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002810 Walker A/P-loop; other site 28072002811 ATP binding site [chemical binding]; other site 28072002812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072002813 ABC transporter signature motif; other site 28072002814 Walker B; other site 28072002815 D-loop; other site 28072002816 H-loop/switch region; other site 28072002817 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 28072002818 diiron binding motif [ion binding]; other site 28072002819 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 28072002820 MarR family; Region: MarR_2; cl17246 28072002821 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 28072002822 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072002823 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072002824 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072002825 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072002826 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072002827 DevC protein; Region: devC; TIGR01185 28072002828 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072002829 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072002830 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072002831 Walker A/P-loop; other site 28072002832 ATP binding site [chemical binding]; other site 28072002833 Q-loop/lid; other site 28072002834 ABC transporter signature motif; other site 28072002835 Walker B; other site 28072002836 D-loop; other site 28072002837 H-loop/switch region; other site 28072002838 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 28072002839 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072002840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072002841 active site 28072002842 phosphorylation site [posttranslational modification] 28072002843 intermolecular recognition site; other site 28072002844 dimerization interface [polypeptide binding]; other site 28072002845 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 28072002846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072002847 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072002848 PAS domain; Region: PAS_9; pfam13426 28072002849 putative active site [active] 28072002850 heme pocket [chemical binding]; other site 28072002851 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072002852 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072002853 putative active site [active] 28072002854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072002855 heme pocket [chemical binding]; other site 28072002856 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072002857 dimer interface [polypeptide binding]; other site 28072002858 phosphorylation site [posttranslational modification] 28072002859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072002860 ATP binding site [chemical binding]; other site 28072002861 Mg2+ binding site [ion binding]; other site 28072002862 G-X-G motif; other site 28072002863 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 28072002864 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 28072002865 PYR/PP interface [polypeptide binding]; other site 28072002866 dimer interface [polypeptide binding]; other site 28072002867 TPP binding site [chemical binding]; other site 28072002868 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 28072002869 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 28072002870 TPP-binding site [chemical binding]; other site 28072002871 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 28072002872 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 28072002873 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 28072002874 NAD binding site [chemical binding]; other site 28072002875 Phe binding site; other site 28072002876 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 28072002877 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 28072002878 DDE superfamily endonuclease; Region: DDE_5; cl17874 28072002879 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 28072002880 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 28072002881 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13396 28072002882 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 28072002883 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 28072002884 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 28072002885 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 28072002886 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 28072002887 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 28072002888 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072002889 binding surface 28072002890 TPR repeat; Region: TPR_11; pfam13414 28072002891 TPR motif; other site 28072002892 TPR repeat; Region: TPR_11; pfam13414 28072002893 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072002894 binding surface 28072002895 TPR motif; other site 28072002896 TPR repeat; Region: TPR_11; pfam13414 28072002897 TPR repeat; Region: TPR_11; pfam13414 28072002898 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072002899 binding surface 28072002900 TPR motif; other site 28072002901 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 28072002902 catalytic core [active] 28072002903 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 28072002904 catalytic core [active] 28072002905 dihydroorotase; Provisional; Region: PRK07369 28072002906 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072002907 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 28072002908 active site 28072002909 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 28072002910 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 28072002911 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 28072002912 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 28072002913 four helix bundle protein; Region: TIGR02436 28072002914 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 28072002915 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 28072002916 CRISPR/Cas system-associated protein Csc1; Region: Csc1_I-D; cd09711 28072002917 CRISPR type I-D/CYANO-associated protein Csc1; Region: cas_Csc1; TIGR03159 28072002918 CRISPR/Cas system-associated protein Csc2; Region: Csc2_I-D; cd09709 28072002919 CRISPR/Cas system-associated protein Cas10d; Region: Cas10d_I-D; cd09712 28072002920 CRISPR type I-D/CYANO-associated protein Csc3/Cas10d; Region: cas_Csc3; TIGR03174 28072002921 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 28072002922 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 28072002923 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 28072002924 CRISPR/Cas system-associated protein Cas3; Distinct diverged subfamily of Cas3 helicase domain; Region: Cas3_I-D; cd09710 28072002925 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 28072002926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072002927 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072002928 WYL domain; Region: WYL; pfam13280 28072002929 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072002930 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002931 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002932 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 28072002933 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 28072002934 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 28072002935 lipoyl attachment site [posttranslational modification]; other site 28072002936 glycine dehydrogenase; Provisional; Region: PRK05367 28072002937 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 28072002938 tetramer interface [polypeptide binding]; other site 28072002939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072002940 catalytic residue [active] 28072002941 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 28072002942 tetramer interface [polypeptide binding]; other site 28072002943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072002944 catalytic residue [active] 28072002945 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 28072002946 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072002947 non-specific DNA binding site [nucleotide binding]; other site 28072002948 salt bridge; other site 28072002949 sequence-specific DNA binding site [nucleotide binding]; other site 28072002950 AAA ATPase domain; Region: AAA_16; pfam13191 28072002951 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072002952 structural tetrad; other site 28072002953 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072002954 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072002955 structural tetrad; other site 28072002956 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072002957 putative active site [active] 28072002958 AAA ATPase domain; Region: AAA_16; pfam13191 28072002959 AAA domain; Region: AAA_22; pfam13401 28072002960 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 28072002961 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 28072002962 NADP binding site [chemical binding]; other site 28072002963 active site 28072002964 putative substrate binding site [chemical binding]; other site 28072002965 TPR repeat; Region: TPR_11; pfam13414 28072002966 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072002967 binding surface 28072002968 TPR motif; other site 28072002969 TPR repeat; Region: TPR_11; pfam13414 28072002970 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072002971 TPR repeat; Region: TPR_11; pfam13414 28072002972 binding surface 28072002973 TPR motif; other site 28072002974 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072002975 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002976 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072002977 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 28072002978 active site 28072002979 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 28072002980 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 28072002981 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 28072002982 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072002983 catalytic loop [active] 28072002984 iron binding site [ion binding]; other site 28072002985 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 28072002986 Stage II sporulation protein; Region: SpoIID; pfam08486 28072002987 ParB-like nuclease domain; Region: ParBc; cl02129 28072002988 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 28072002989 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 28072002990 dimerization interface [polypeptide binding]; other site 28072002991 DPS ferroxidase diiron center [ion binding]; other site 28072002992 ion pore; other site 28072002993 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 28072002994 non-specific DNA binding site [nucleotide binding]; other site 28072002995 salt bridge; other site 28072002996 sequence-specific DNA binding site [nucleotide binding]; other site 28072002997 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 28072002998 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 28072002999 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 28072003000 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 28072003001 anti sigma factor interaction site; other site 28072003002 regulatory phosphorylation site [posttranslational modification]; other site 28072003003 Response regulator receiver domain; Region: Response_reg; pfam00072 28072003004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003005 active site 28072003006 phosphorylation site [posttranslational modification] 28072003007 intermolecular recognition site; other site 28072003008 dimerization interface [polypeptide binding]; other site 28072003009 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 28072003010 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 28072003011 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 28072003012 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14258 28072003013 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 28072003014 Walker A/P-loop; other site 28072003015 ATP binding site [chemical binding]; other site 28072003016 Q-loop/lid; other site 28072003017 ABC transporter signature motif; other site 28072003018 Walker B; other site 28072003019 D-loop; other site 28072003020 H-loop/switch region; other site 28072003021 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 28072003022 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 28072003023 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003024 dimerization interface [polypeptide binding]; other site 28072003025 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003026 dimerization interface [polypeptide binding]; other site 28072003027 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 28072003028 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003029 dimerization interface [polypeptide binding]; other site 28072003030 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003031 dimerization interface [polypeptide binding]; other site 28072003032 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003033 dimerization interface [polypeptide binding]; other site 28072003034 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003035 dimerization interface [polypeptide binding]; other site 28072003036 GAF domain; Region: GAF_2; pfam13185 28072003037 GAF domain; Region: GAF; pfam01590 28072003038 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003039 dimer interface [polypeptide binding]; other site 28072003040 phosphorylation site [posttranslational modification] 28072003041 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003042 ATP binding site [chemical binding]; other site 28072003043 Mg2+ binding site [ion binding]; other site 28072003044 G-X-G motif; other site 28072003045 Response regulator receiver domain; Region: Response_reg; pfam00072 28072003046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003047 active site 28072003048 phosphorylation site [posttranslational modification] 28072003049 intermolecular recognition site; other site 28072003050 dimerization interface [polypeptide binding]; other site 28072003051 Response regulator receiver domain; Region: Response_reg; pfam00072 28072003052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003053 active site 28072003054 phosphorylation site [posttranslational modification] 28072003055 intermolecular recognition site; other site 28072003056 dimerization interface [polypeptide binding]; other site 28072003057 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072003058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003059 active site 28072003060 phosphorylation site [posttranslational modification] 28072003061 intermolecular recognition site; other site 28072003062 dimerization interface [polypeptide binding]; other site 28072003063 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072003064 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 28072003065 UreF; Region: UreF; pfam01730 28072003066 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 28072003067 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 28072003068 dimer interface [polypeptide binding]; other site 28072003069 catalytic residues [active] 28072003070 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 28072003071 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 28072003072 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072003073 FeS/SAM binding site; other site 28072003074 Radical SAM superfamily; Region: Radical_SAM; pfam04055 28072003075 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003076 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072003077 putative active site [active] 28072003078 heme pocket [chemical binding]; other site 28072003079 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003080 putative active site [active] 28072003081 heme pocket [chemical binding]; other site 28072003082 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 28072003083 dimer interface [polypeptide binding]; other site 28072003084 phosphorylation site [posttranslational modification] 28072003085 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003086 ATP binding site [chemical binding]; other site 28072003087 Mg2+ binding site [ion binding]; other site 28072003088 G-X-G motif; other site 28072003089 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 28072003090 Low molecular weight phosphatase family; Region: LMWPc; cd00115 28072003091 active site 28072003092 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 28072003093 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 28072003094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072003095 dimer interface [polypeptide binding]; other site 28072003096 conserved gate region; other site 28072003097 putative PBP binding loops; other site 28072003098 ABC-ATPase subunit interface; other site 28072003099 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 28072003100 Methyltransferase domain; Region: Methyltransf_26; pfam13659 28072003101 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 28072003102 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 28072003103 dimerization interface [polypeptide binding]; other site 28072003104 active site 28072003105 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 28072003106 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 28072003107 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 28072003108 molybdopterin cofactor binding site; other site 28072003109 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 28072003110 molybdopterin cofactor binding site; other site 28072003111 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072003112 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 28072003113 Peptidase family M50; Region: Peptidase_M50; pfam02163 28072003114 active site 28072003115 putative substrate binding region [chemical binding]; other site 28072003116 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 28072003117 FOG: CBS domain [General function prediction only]; Region: COG0517 28072003118 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 28072003119 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 28072003120 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 28072003121 Methyltransferase domain; Region: Methyltransf_23; pfam13489 28072003122 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072003123 S-adenosylmethionine binding site [chemical binding]; other site 28072003124 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 28072003125 putative active site [active] 28072003126 putative metal binding site [ion binding]; other site 28072003127 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 28072003128 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 28072003129 adaptive-response sensory kinase; Validated; Region: PRK09303 28072003130 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 28072003131 tetramer interface [polypeptide binding]; other site 28072003132 dimer interface [polypeptide binding]; other site 28072003133 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003134 dimer interface [polypeptide binding]; other site 28072003135 phosphorylation site [posttranslational modification] 28072003136 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003137 ATP binding site [chemical binding]; other site 28072003138 Mg2+ binding site [ion binding]; other site 28072003139 G-X-G motif; other site 28072003140 S-layer homology domain; Region: SLH; pfam00395 28072003141 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 28072003142 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 28072003143 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 28072003144 Part of AAA domain; Region: AAA_19; pfam13245 28072003145 Family description; Region: UvrD_C_2; pfam13538 28072003146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072003147 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072003148 dimerization interface [polypeptide binding]; other site 28072003149 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003150 dimer interface [polypeptide binding]; other site 28072003151 phosphorylation site [posttranslational modification] 28072003152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003153 ATP binding site [chemical binding]; other site 28072003154 Mg2+ binding site [ion binding]; other site 28072003155 G-X-G motif; other site 28072003156 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 28072003157 S-adenosylmethionine synthetase; Validated; Region: PRK05250 28072003158 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 28072003159 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 28072003160 phosphoribulokinase; Provisional; Region: PRK07429 28072003161 Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH...; Region: PRK; cd02026 28072003162 active site 28072003163 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 28072003164 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 28072003165 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 28072003166 dimerization interface [polypeptide binding]; other site 28072003167 FAD binding pocket [chemical binding]; other site 28072003168 FAD binding motif [chemical binding]; other site 28072003169 catalytic residues [active] 28072003170 NAD binding pocket [chemical binding]; other site 28072003171 phosphate binding motif [ion binding]; other site 28072003172 beta-alpha-beta structure motif; other site 28072003173 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 28072003174 homoserine dehydrogenase; Provisional; Region: PRK06349 28072003175 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 28072003176 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 28072003177 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 28072003178 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072003179 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072003180 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072003181 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 28072003182 catalytic site [active] 28072003183 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072003184 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 28072003185 Inward rectifier potassium channel; Region: IRK; pfam01007 28072003186 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072003187 Major Facilitator Superfamily; Region: MFS_1; pfam07690 28072003188 putative substrate translocation pore; other site 28072003189 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 28072003190 PRC-barrel domain; Region: PRC; pfam05239 28072003191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3861 28072003192 PRC-barrel domain; Region: PRC; pfam05239 28072003193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3861 28072003194 transketolase; Reviewed; Region: PRK05899 28072003195 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 28072003196 TPP-binding site [chemical binding]; other site 28072003197 dimer interface [polypeptide binding]; other site 28072003198 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 28072003199 PYR/PP interface [polypeptide binding]; other site 28072003200 dimer interface [polypeptide binding]; other site 28072003201 TPP binding site [chemical binding]; other site 28072003202 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 28072003203 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 28072003204 PHP domain; Region: PHP; pfam02811 28072003205 active site 28072003206 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 28072003207 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 28072003208 dimerization interface [polypeptide binding]; other site 28072003209 putative ATP binding site [chemical binding]; other site 28072003210 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 28072003211 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 28072003212 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 28072003213 bifunctional pantoate ligase/cytidylate kinase; Provisional; Region: PRK13477 28072003214 Pantoate-beta-alanine ligase; Region: PanC; cd00560 28072003215 active site 28072003216 ATP-binding site [chemical binding]; other site 28072003217 pantoate-binding site; other site 28072003218 HXXH motif; other site 28072003219 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 28072003220 CMP-binding site; other site 28072003221 The sites determining sugar specificity; other site 28072003222 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 28072003223 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 28072003224 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 28072003225 glutaminase A; Region: Gln_ase; TIGR03814 28072003226 S-layer homology domain; Region: SLH; pfam00395 28072003227 S-layer homology domain; Region: SLH; pfam00395 28072003228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 28072003229 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072003230 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 28072003231 PemK-like protein; Region: PemK; pfam02452 28072003232 Caspase domain; Region: Peptidase_C14; pfam00656 28072003233 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072003234 G3 box; other site 28072003235 Switch II region; other site 28072003236 G4 box; other site 28072003237 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072003238 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072003239 structural tetrad; other site 28072003240 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 28072003241 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 28072003242 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 28072003243 RNA binding site [nucleotide binding]; other site 28072003244 active site 28072003245 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 28072003246 ribonuclease Z; Region: RNase_Z; TIGR02651 28072003247 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072003248 CHASE2 domain; Region: CHASE2; pfam05226 28072003249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 28072003250 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 28072003251 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072003252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003253 active site 28072003254 phosphorylation site [posttranslational modification] 28072003255 intermolecular recognition site; other site 28072003256 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072003257 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072003258 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072003259 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072003260 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072003261 putative active site [active] 28072003262 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072003263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072003264 Walker A/P-loop; other site 28072003265 ATP binding site [chemical binding]; other site 28072003266 Q-loop/lid; other site 28072003267 ABC transporter signature motif; other site 28072003268 Walker B; other site 28072003269 D-loop; other site 28072003270 H-loop/switch region; other site 28072003271 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 28072003272 homotrimer interface [polypeptide binding]; other site 28072003273 Walker A motif; other site 28072003274 GTP binding site [chemical binding]; other site 28072003275 Walker B motif; other site 28072003276 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072003277 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072003278 active site 28072003279 putative acyl transferase; Provisional; Region: PRK10502 28072003280 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 28072003281 putative trimer interface [polypeptide binding]; other site 28072003282 putative active site [active] 28072003283 putative substrate binding site [chemical binding]; other site 28072003284 putative CoA binding site [chemical binding]; other site 28072003285 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 28072003286 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 28072003287 light-harvesting-like protein 3; Provisional; Region: PLN00014 28072003288 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 28072003289 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 28072003290 transmembrane helices; other site 28072003291 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 28072003292 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072003293 Walker A/P-loop; other site 28072003294 ATP binding site [chemical binding]; other site 28072003295 Q-loop/lid; other site 28072003296 ABC transporter signature motif; other site 28072003297 Walker B; other site 28072003298 D-loop; other site 28072003299 H-loop/switch region; other site 28072003300 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072003301 NMT1-like family; Region: NMT1_2; pfam13379 28072003302 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 28072003303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072003304 dimer interface [polypeptide binding]; other site 28072003305 conserved gate region; other site 28072003306 putative PBP binding loops; other site 28072003307 ABC-ATPase subunit interface; other site 28072003308 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 28072003309 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072003310 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003311 dimer interface [polypeptide binding]; other site 28072003312 phosphorylation site [posttranslational modification] 28072003313 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003314 ATP binding site [chemical binding]; other site 28072003315 Mg2+ binding site [ion binding]; other site 28072003316 G-X-G motif; other site 28072003317 Gtr1/RagA G protein conserved region; Region: Gtr1_RagA; pfam04670 28072003318 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 28072003319 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 28072003320 dimerization interface [polypeptide binding]; other site 28072003321 active site 28072003322 metal binding site [ion binding]; metal-binding site 28072003323 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 28072003324 dsRNA binding site [nucleotide binding]; other site 28072003325 LabA_like proteins; Region: LabA_like; cd06167 28072003326 putative metal binding site [ion binding]; other site 28072003327 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072003328 putative active site [active] 28072003329 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 28072003330 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072003331 Walker A motif; other site 28072003332 ATP binding site [chemical binding]; other site 28072003333 Walker B motif; other site 28072003334 arginine finger; other site 28072003335 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 28072003336 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 28072003337 metal ion-dependent adhesion site (MIDAS); other site 28072003338 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 28072003339 four helix bundle protein; Region: TIGR02436 28072003340 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 28072003341 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072003342 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072003343 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 28072003344 DNA binding residues [nucleotide binding] 28072003345 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 28072003346 Protein of unknown function (DUF3285); Region: DUF3285; pfam11688 28072003347 metal-binding heat shock protein; Provisional; Region: PRK00016 28072003348 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 28072003349 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 28072003350 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 28072003351 glutamine binding [chemical binding]; other site 28072003352 catalytic triad [active] 28072003353 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 28072003354 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 28072003355 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 28072003356 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072003357 S-adenosylmethionine binding site [chemical binding]; other site 28072003358 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 28072003359 Family description; Region: VCBS; pfam13517 28072003360 Family description; Region: VCBS; pfam13517 28072003361 TPR repeat; Region: TPR_11; pfam13414 28072003362 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072003363 binding surface 28072003364 TPR motif; other site 28072003365 TPR repeat; Region: TPR_11; pfam13414 28072003366 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072003367 binding surface 28072003368 TPR repeat; Region: TPR_11; pfam13414 28072003369 TPR motif; other site 28072003370 TPR repeat; Region: TPR_11; pfam13414 28072003371 Transposase; Region: HTH_Tnp_IS630; pfam01710 28072003372 Homeodomain-like domain; Region: HTH_32; pfam13565 28072003373 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072003374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072003375 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072003376 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 28072003377 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 28072003378 Ligand Binding Site [chemical binding]; other site 28072003379 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072003380 Ligand Binding Site [chemical binding]; other site 28072003381 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 28072003382 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 28072003383 active site 28072003384 dimer interface [polypeptide binding]; other site 28072003385 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 28072003386 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 28072003387 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 28072003388 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 28072003389 putative FMN binding site [chemical binding]; other site 28072003390 NADPH bind site [chemical binding]; other site 28072003391 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 28072003392 YcaO-like family; Region: YcaO; pfam02624 28072003393 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 28072003394 ATP binding site [chemical binding]; other site 28072003395 substrate interface [chemical binding]; other site 28072003396 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 28072003397 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072003398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072003399 Walker A/P-loop; other site 28072003400 ATP binding site [chemical binding]; other site 28072003401 Q-loop/lid; other site 28072003402 ABC transporter signature motif; other site 28072003403 Walker B; other site 28072003404 D-loop; other site 28072003405 H-loop/switch region; other site 28072003406 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 28072003407 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 28072003408 active site 28072003409 catalytic triad [active] 28072003410 oxyanion hole [active] 28072003411 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 28072003412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 28072003413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072003414 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional; Region: PRK13371 28072003415 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 28072003416 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 28072003417 30S subunit binding site; other site 28072003418 Lipoate-protein ligase B [Coenzyme metabolism]; Region: LipB; COG0321 28072003419 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 28072003420 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072003421 substrate binding pocket [chemical binding]; other site 28072003422 membrane-bound complex binding site; other site 28072003423 hinge residues; other site 28072003424 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 28072003425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072003426 dimer interface [polypeptide binding]; other site 28072003427 conserved gate region; other site 28072003428 putative PBP binding loops; other site 28072003429 ABC-ATPase subunit interface; other site 28072003430 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 28072003431 Staphylococcal nuclease homologues; Region: SNc; smart00318 28072003432 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 28072003433 Catalytic site; other site 28072003434 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072003435 dimerization interface [polypeptide binding]; other site 28072003436 putative DNA binding site [nucleotide binding]; other site 28072003437 putative Zn2+ binding site [ion binding]; other site 28072003438 D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; Region: Photo_RC; cl08220 28072003439 pheophytin binding site; other site 28072003440 chlorophyll binding site; other site 28072003441 quinone binding site; other site 28072003442 Fe binding site [ion binding]; other site 28072003443 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 28072003444 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 28072003445 FMN binding site [chemical binding]; other site 28072003446 substrate binding site [chemical binding]; other site 28072003447 putative catalytic residue [active] 28072003448 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 28072003449 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 28072003450 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 28072003451 Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium; Region: Rieske_cytochrome_b6f; cd03471 28072003452 cytochrome b subunit interaction site [polypeptide binding]; other site 28072003453 [2Fe-2S] cluster binding site [ion binding]; other site 28072003454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 28072003455 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072003456 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 28072003457 diiron binding motif [ion binding]; other site 28072003458 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072003459 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072003460 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072003461 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072003462 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072003463 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 28072003464 oligomerization interface [polypeptide binding]; other site 28072003465 active site 28072003466 metal binding site [ion binding]; metal-binding site 28072003467 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 28072003468 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 28072003469 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 28072003470 homodimer interface [polypeptide binding]; other site 28072003471 active site 28072003472 heterodimer interface [polypeptide binding]; other site 28072003473 catalytic residue [active] 28072003474 metal binding site [ion binding]; metal-binding site 28072003475 RbcX protein; Region: RcbX; pfam02341 28072003476 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 28072003477 multimerization interface [polypeptide binding]; other site 28072003478 DNA methylase; Region: N6_N4_Mtase; cl17433 28072003479 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_3; cd01835 28072003480 active site 28072003481 catalytic triad [active] 28072003482 oxyanion hole [active] 28072003483 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 28072003484 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072003485 putative active site [active] 28072003486 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional; Region: PLN00020 28072003487 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 28072003488 putative multimerization interface [polypeptide binding]; other site 28072003489 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072003490 Phage-related lysozyme (muraminidase) [General function prediction only]; Region: COG3772 28072003491 catalytic residue [active] 28072003492 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 28072003493 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 28072003494 YCII-related domain; Region: YCII; cl00999 28072003495 Uncharacterized conserved protein [Function unknown]; Region: COG3937 28072003496 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 28072003497 c-type cytochrome biogenensis protein; Validated; Region: ccs1; CHL00177 28072003498 ResB-like family; Region: ResB; pfam05140 28072003499 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 28072003500 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 28072003501 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_7; cd04620 28072003502 FOG: CBS domain [General function prediction only]; Region: COG0517 28072003503 PAS fold; Region: PAS_3; pfam08447 28072003504 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003505 putative active site [active] 28072003506 heme pocket [chemical binding]; other site 28072003507 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003508 PAS fold; Region: PAS_3; pfam08447 28072003509 putative active site [active] 28072003510 heme pocket [chemical binding]; other site 28072003511 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072003512 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003513 putative active site [active] 28072003514 heme pocket [chemical binding]; other site 28072003515 PAS fold; Region: PAS_3; pfam08447 28072003516 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003517 putative active site [active] 28072003518 heme pocket [chemical binding]; other site 28072003519 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003520 PAS domain; Region: PAS_9; pfam13426 28072003521 putative active site [active] 28072003522 heme pocket [chemical binding]; other site 28072003523 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003524 PAS fold; Region: PAS_3; pfam08447 28072003525 putative active site [active] 28072003526 heme pocket [chemical binding]; other site 28072003527 PAS domain S-box; Region: sensory_box; TIGR00229 28072003528 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003529 putative active site [active] 28072003530 heme pocket [chemical binding]; other site 28072003531 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 28072003532 Histidine kinase; Region: HisKA_2; pfam07568 28072003533 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003534 ATP binding site [chemical binding]; other site 28072003535 Mg2+ binding site [ion binding]; other site 28072003536 G-X-G motif; other site 28072003537 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072003538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003539 active site 28072003540 phosphorylation site [posttranslational modification] 28072003541 intermolecular recognition site; other site 28072003542 dimerization interface [polypeptide binding]; other site 28072003543 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072003544 putative active site [active] 28072003545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072003546 heme pocket [chemical binding]; other site 28072003547 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003548 dimer interface [polypeptide binding]; other site 28072003549 phosphorylation site [posttranslational modification] 28072003550 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003551 ATP binding site [chemical binding]; other site 28072003552 Mg2+ binding site [ion binding]; other site 28072003553 G-X-G motif; other site 28072003554 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072003555 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 28072003556 active site 28072003557 catalytic tetrad [active] 28072003558 Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic...; Region: Rieske_RO_Alpha_PaO; cd03480 28072003559 pheophorbide a oxygenase; Region: PLN02518 28072003560 Pheophorbide a oxygenase; Region: PaO; pfam08417 28072003561 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 28072003562 diiron binding motif [ion binding]; other site 28072003563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 28072003564 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072003565 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 28072003566 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 28072003567 active site 28072003568 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 28072003569 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 28072003570 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 28072003571 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 28072003572 hypothetical protein; Provisional; Region: PRK07236 28072003573 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 28072003574 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 28072003575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072003576 catalytic residue [active] 28072003577 Uncharacterized metal-binding protein [General function prediction only]; Region: COG2389 28072003578 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 28072003579 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 28072003580 homodimer interface [polypeptide binding]; other site 28072003581 metal binding site [ion binding]; metal-binding site 28072003582 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 28072003583 homodimer interface [polypeptide binding]; other site 28072003584 active site 28072003585 putative chemical substrate binding site [chemical binding]; other site 28072003586 metal binding site [ion binding]; metal-binding site 28072003587 Domain of unknown function DUF20; Region: UPF0118; pfam01594 28072003588 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072003589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072003590 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 28072003591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072003592 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072003593 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 28072003594 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072003595 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 28072003596 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 28072003597 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 28072003598 dimerization interface [polypeptide binding]; other site 28072003599 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 28072003600 ATP binding site [chemical binding]; other site 28072003601 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 28072003602 active site 1 [active] 28072003603 dimer interface [polypeptide binding]; other site 28072003604 hexamer interface [polypeptide binding]; other site 28072003605 active site 2 [active] 28072003606 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 28072003607 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 28072003608 HupF/HypC family; Region: HupF_HypC; pfam01455 28072003609 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 28072003610 Acylphosphatase; Region: Acylphosphatase; pfam00708 28072003611 HypF finger; Region: zf-HYPF; pfam07503 28072003612 HypF finger; Region: zf-HYPF; pfam07503 28072003613 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 28072003614 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 28072003615 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 28072003616 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072003617 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072003618 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 28072003619 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 28072003620 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 28072003621 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 28072003622 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072003623 Putative addiction module component; Region: Unstab_antitox; cl09921 28072003624 putative addiction module component, TIGR02574 family; Region: stabl_TIGR02574 28072003625 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072003626 oligomeric interface; other site 28072003627 putative active site [active] 28072003628 homodimer interface [polypeptide binding]; other site 28072003629 This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found...; Region: H2MP_Cyano-H2up; cd06063 28072003630 nickel binding site [ion binding]; other site 28072003631 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 28072003632 NADPH bind site [chemical binding]; other site 28072003633 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 28072003634 putative FMN binding site [chemical binding]; other site 28072003635 NADPH bind site [chemical binding]; other site 28072003636 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 28072003637 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072003638 FOG: CBS domain [General function prediction only]; Region: COG0517 28072003639 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 28072003640 CP12 domain; Region: CP12; smart01093 28072003641 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072003642 catalytic loop [active] 28072003643 iron binding site [ion binding]; other site 28072003644 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 28072003645 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 28072003646 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 28072003647 ATP binding site [chemical binding]; other site 28072003648 substrate interface [chemical binding]; other site 28072003649 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK14102 28072003650 Rop-like; Region: Rop-like; pfam05082 28072003651 Protein of unknown function, DUF269; Region: DUF269; pfam03270 28072003652 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 28072003653 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 28072003654 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 28072003655 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 28072003656 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 28072003657 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 28072003658 Replication initiation factor; Region: Rep_trans; pfam02486 28072003659 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072003660 active site 28072003661 catalytic residues [active] 28072003662 DNA binding site [nucleotide binding] 28072003663 Int/Topo IB signature motif; other site 28072003664 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072003665 active site 28072003666 catalytic residues [active] 28072003667 DNA binding site [nucleotide binding] 28072003668 Int/Topo IB signature motif; other site 28072003669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 28072003670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072003671 AAA domain; Region: AAA_23; pfam13476 28072003672 AAA domain; Region: AAA_21; pfam13304 28072003673 Walker A/P-loop; other site 28072003674 ATP binding site [chemical binding]; other site 28072003675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072003676 Walker B; other site 28072003677 D-loop; other site 28072003678 H-loop/switch region; other site 28072003679 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072003680 putative active site [active] 28072003681 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072003682 active site 28072003683 Methyltransferase domain; Region: Methyltransf_26; pfam13659 28072003684 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072003685 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 28072003686 HSP70 interaction site [polypeptide binding]; other site 28072003687 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 28072003688 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 28072003689 MoFe protein alpha/beta subunit interactions; other site 28072003690 Alpha subunit P cluster binding residues; other site 28072003691 FeMoco binding residues [chemical binding]; other site 28072003692 MoFe protein alpha subunit/Fe protein contacts; other site 28072003693 MoFe protein dimer/ dimer interactions; other site 28072003694 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072003695 active site 28072003696 catalytic residues [active] 28072003697 DNA binding site [nucleotide binding] 28072003698 Int/Topo IB signature motif; other site 28072003699 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 28072003700 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 28072003701 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 28072003702 YcfA-like protein; Region: YcfA; pfam07927 28072003703 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 28072003704 AAA domain; Region: AAA_21; pfam13304 28072003705 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 28072003706 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 28072003707 trimerization site [polypeptide binding]; other site 28072003708 active site 28072003709 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 28072003710 NifU-like domain; Region: NifU; pfam01106 28072003711 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 28072003712 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 28072003713 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072003714 catalytic residue [active] 28072003715 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 28072003716 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 28072003717 catalytic residues [active] 28072003718 catalytic nucleophile [active] 28072003719 Presynaptic Site I dimer interface [polypeptide binding]; other site 28072003720 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 28072003721 Synaptic Flat tetramer interface [polypeptide binding]; other site 28072003722 Synaptic Site I dimer interface [polypeptide binding]; other site 28072003723 DNA binding site [nucleotide binding] 28072003724 Recombinase; Region: Recombinase; pfam07508 28072003725 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 28072003726 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 28072003727 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072003728 structural tetrad; other site 28072003729 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 28072003730 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 28072003731 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072003732 FeS/SAM binding site; other site 28072003733 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 28072003734 TPR repeat; Region: TPR_11; pfam13414 28072003735 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 28072003736 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 28072003737 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 28072003738 putative NAD(P) binding site [chemical binding]; other site 28072003739 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072003740 CHASE2 domain; Region: CHASE2; pfam05226 28072003741 Protein kinase domain; Region: Pkinase; pfam00069 28072003742 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072003743 active site 28072003744 ATP binding site [chemical binding]; other site 28072003745 substrate binding site [chemical binding]; other site 28072003746 activation loop (A-loop); other site 28072003747 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072003748 binding surface 28072003749 TPR motif; other site 28072003750 TPR repeat; Region: TPR_11; pfam13414 28072003751 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 28072003752 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 28072003753 Surface antigen; Region: Bac_surface_Ag; pfam01103 28072003754 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072003755 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072003756 active site 28072003757 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072003758 haemagglutination activity domain; Region: Haemagg_act; pfam05860 28072003759 CHAT domain; Region: CHAT; cl17868 28072003760 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 28072003761 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 28072003762 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 28072003763 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 28072003764 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 28072003765 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 28072003766 active site 28072003767 dimer interface [polypeptide binding]; other site 28072003768 motif 1; other site 28072003769 motif 2; other site 28072003770 motif 3; other site 28072003771 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 28072003772 anticodon binding site; other site 28072003773 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 28072003774 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 28072003775 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 28072003776 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 28072003777 homodecamer interface [polypeptide binding]; other site 28072003778 GTP cyclohydrolase I; Provisional; Region: PLN03044 28072003779 active site 28072003780 putative catalytic site residues [active] 28072003781 zinc binding site [ion binding]; other site 28072003782 GTP-CH-I/GFRP interaction surface; other site 28072003783 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 28072003784 phage tail protein domain; Region: tail_TIGR02242 28072003785 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 28072003786 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 28072003787 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 28072003788 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 28072003789 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 28072003790 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 28072003791 Phage protein D [General function prediction only]; Region: COG3500 28072003792 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 28072003793 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 28072003794 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 28072003795 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 28072003796 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 28072003797 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 28072003798 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 28072003799 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 28072003800 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 28072003801 Protein of unknown function (DUF2012); Region: DUF2012; pfam09430 28072003802 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 28072003803 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 28072003804 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 28072003805 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072003806 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 28072003807 Walker A motif; other site 28072003808 ATP binding site [chemical binding]; other site 28072003809 Walker B motif; other site 28072003810 arginine finger; other site 28072003811 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072003812 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072003813 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072003814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003815 active site 28072003816 phosphorylation site [posttranslational modification] 28072003817 intermolecular recognition site; other site 28072003818 dimerization interface [polypeptide binding]; other site 28072003819 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 28072003820 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 28072003821 nucleophilic elbow; other site 28072003822 catalytic triad; other site 28072003823 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003824 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003825 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003826 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003827 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003828 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003829 FG-GAP repeat; Region: FG-GAP_2; pfam14312 28072003830 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 28072003831 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 28072003832 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 28072003833 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 28072003834 SapC; Region: SapC; pfam07277 28072003835 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 28072003836 MgtE intracellular N domain; Region: MgtE_N; smart00924 28072003837 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 28072003838 Divalent cation transporter; Region: MgtE; pfam01769 28072003839 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 28072003840 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 28072003841 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 28072003842 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072003843 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072003844 Phytochrome region; Region: PHY; pfam00360 28072003845 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072003846 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072003847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072003848 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003849 dimer interface [polypeptide binding]; other site 28072003850 phosphorylation site [posttranslational modification] 28072003851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072003852 ATP binding site [chemical binding]; other site 28072003853 Mg2+ binding site [ion binding]; other site 28072003854 G-X-G motif; other site 28072003855 Response regulator receiver domain; Region: Response_reg; pfam00072 28072003856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072003857 active site 28072003858 phosphorylation site [posttranslational modification] 28072003859 intermolecular recognition site; other site 28072003860 dimerization interface [polypeptide binding]; other site 28072003861 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 28072003862 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072003863 catalytic triad [active] 28072003864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072003865 Probable transposase; Region: OrfB_IS605; pfam01385 28072003866 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072003867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 28072003868 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072003869 putative active site [active] 28072003870 GTPase CgtA; Reviewed; Region: obgE; PRK12299 28072003871 GTP1/OBG; Region: GTP1_OBG; pfam01018 28072003872 Obg GTPase; Region: Obg; cd01898 28072003873 G1 box; other site 28072003874 GTP/Mg2+ binding site [chemical binding]; other site 28072003875 Switch I region; other site 28072003876 G2 box; other site 28072003877 G3 box; other site 28072003878 Switch II region; other site 28072003879 G4 box; other site 28072003880 G5 box; other site 28072003881 tellurium resistance terB-like protein; Region: terB_like; cd07177 28072003882 metal binding site [ion binding]; metal-binding site 28072003883 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 28072003884 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072003885 putative active site [active] 28072003886 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 28072003887 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 28072003888 putative substrate binding pocket [chemical binding]; other site 28072003889 AC domain interface; other site 28072003890 catalytic triad [active] 28072003891 AB domain interface; other site 28072003892 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 28072003893 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 28072003894 putative active site [active] 28072003895 oxyanion strand; other site 28072003896 catalytic triad [active] 28072003897 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 28072003898 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072003899 S-adenosylmethionine binding site [chemical binding]; other site 28072003900 cytochrome b6-f complex subunit PetG; Reviewed; Region: petG; PRK00665 28072003901 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 28072003902 Cytochrome c; Region: Cytochrom_C; pfam00034 28072003903 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 28072003904 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 28072003905 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 28072003906 active site residue [active] 28072003907 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 28072003908 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072003909 putative active site [active] 28072003910 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 28072003911 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 28072003912 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 28072003913 trimer interface [polypeptide binding]; other site 28072003914 active site 28072003915 substrate binding site [chemical binding]; other site 28072003916 CoA binding site [chemical binding]; other site 28072003917 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 28072003918 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 28072003919 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 28072003920 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 28072003921 protein-splicing catalytic site; other site 28072003922 thioester formation/cholesterol transfer; other site 28072003923 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 28072003924 Homing endonuclease; Region: Hom_end; pfam05204 28072003925 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 28072003926 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 28072003927 protein-splicing catalytic site; other site 28072003928 thioester formation/cholesterol transfer; other site 28072003929 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 28072003930 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 28072003931 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 28072003932 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 28072003933 AMP binding site [chemical binding]; other site 28072003934 metal binding site [ion binding]; metal-binding site 28072003935 active site 28072003936 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 28072003937 putative active site [active] 28072003938 transaldolase; Provisional; Region: PRK03903 28072003939 catalytic residue [active] 28072003940 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 28072003941 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 28072003942 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 28072003943 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072003944 Glucose-6-P dehydrogenase subunit [Carbohydrate transport and metabolism]; Region: COG3429 28072003945 aldehyde dehydrogenase family 2 member; Region: PLN02466 28072003946 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 28072003947 NAD(P) binding site [chemical binding]; other site 28072003948 catalytic residues [active] 28072003949 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 28072003950 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 28072003951 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 28072003952 trimer interface [polypeptide binding]; other site 28072003953 active site 28072003954 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 28072003955 catalytic site [active] 28072003956 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072003957 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072003958 active site 28072003959 ATP binding site [chemical binding]; other site 28072003960 substrate binding site [chemical binding]; other site 28072003961 activation loop (A-loop); other site 28072003962 putative pectinesterase; Region: PLN02432; cl01911 28072003963 Right handed beta helix region; Region: Beta_helix; pfam13229 28072003964 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 28072003965 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 28072003966 catalytic triad [active] 28072003967 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 28072003968 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 28072003969 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072003970 catalytic residue [active] 28072003971 Homeodomain-like domain; Region: HTH_23; cl17451 28072003972 Winged helix-turn helix; Region: HTH_29; pfam13551 28072003973 Homeodomain-like domain; Region: HTH_32; pfam13565 28072003974 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072003975 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 28072003976 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 28072003977 proposed catalytic triad [active] 28072003978 active site nucleophile [active] 28072003979 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072003980 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072003981 GTP-binding protein LepA; Provisional; Region: PRK05433 28072003982 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 28072003983 G1 box; other site 28072003984 putative GEF interaction site [polypeptide binding]; other site 28072003985 GTP/Mg2+ binding site [chemical binding]; other site 28072003986 Switch I region; other site 28072003987 G2 box; other site 28072003988 G3 box; other site 28072003989 Switch II region; other site 28072003990 G4 box; other site 28072003991 G5 box; other site 28072003992 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 28072003993 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 28072003994 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 28072003995 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072003996 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072003997 GAF domain; Region: GAF_3; pfam13492 28072003998 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072003999 dimer interface [polypeptide binding]; other site 28072004000 phosphorylation site [posttranslational modification] 28072004001 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004002 ATP binding site [chemical binding]; other site 28072004003 Mg2+ binding site [ion binding]; other site 28072004004 G-X-G motif; other site 28072004005 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cl01898 28072004006 putative active site [active] 28072004007 NifU-like domain; Region: NifU; cl00484 28072004008 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 28072004009 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 28072004010 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 28072004011 putative active site [active] 28072004012 catalytic site [active] 28072004013 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 28072004014 hypothetical protein; Reviewed; Region: PRK09588 28072004015 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 28072004016 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072004017 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 28072004018 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 28072004019 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072004020 motif II; other site 28072004021 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072004022 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 28072004023 Beta/Gamma crystallin; Region: Crystall; cl02528 28072004024 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072004025 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072004026 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072004027 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072004028 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072004029 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072004030 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 28072004031 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072004032 structural tetrad; other site 28072004033 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 28072004034 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 28072004035 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 28072004036 acyl-activating enzyme (AAE) consensus motif; other site 28072004037 active site 28072004038 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 28072004039 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072004040 S-adenosylmethionine binding site [chemical binding]; other site 28072004041 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 28072004042 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 28072004043 dinuclear metal binding motif [ion binding]; other site 28072004044 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 28072004045 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072004046 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 28072004047 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072004048 active site 28072004049 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 28072004050 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 28072004051 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 28072004052 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 28072004053 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 28072004054 putative NADP binding site [chemical binding]; other site 28072004055 active site 28072004056 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072004057 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 28072004058 putative acyl-acceptor binding pocket; other site 28072004059 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 28072004060 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072004061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072004062 Uncharacterized conserved protein [Function unknown]; Region: COG3349 28072004063 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072004064 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 28072004065 active site 28072004066 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072004067 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 28072004068 active site 28072004069 Acyl transferase domain; Region: Acyl_transf_1; cl08282 28072004070 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 28072004071 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 28072004072 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 28072004073 active site 1 [active] 28072004074 dimer interface [polypeptide binding]; other site 28072004075 active site 2 [active] 28072004076 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 28072004077 active site 1 [active] 28072004078 dimer interface [polypeptide binding]; other site 28072004079 active site 2 [active] 28072004080 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 28072004081 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072004082 motif II; other site 28072004083 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 28072004084 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 28072004085 acyl-activating enzyme (AAE) consensus motif; other site 28072004086 putative active site [active] 28072004087 putative AMP binding site [chemical binding]; other site 28072004088 putative CoA binding site [chemical binding]; other site 28072004089 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 28072004090 Condensation domain; Region: Condensation; pfam00668 28072004091 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 28072004092 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 28072004093 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 28072004094 acyl-activating enzyme (AAE) consensus motif; other site 28072004095 AMP binding site [chemical binding]; other site 28072004096 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 28072004097 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 28072004098 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 28072004099 FMN binding site [chemical binding]; other site 28072004100 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 28072004101 substrate binding site [chemical binding]; other site 28072004102 putative catalytic residue [active] 28072004103 H+ Antiporter protein; Region: 2A0121; TIGR00900 28072004104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072004105 putative substrate translocation pore; other site 28072004106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 28072004107 CHAT domain; Region: CHAT; cl17868 28072004108 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072004109 CHASE2 domain; Region: CHASE2; pfam05226 28072004110 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 28072004111 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 28072004112 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072004113 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 28072004114 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072004115 binding surface 28072004116 TPR motif; other site 28072004117 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072004118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 28072004119 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072004120 Ca2+ binding site [ion binding]; other site 28072004121 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072004122 Ca2+ binding site [ion binding]; other site 28072004123 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072004124 Ca2+ binding site [ion binding]; other site 28072004125 CARDB; Region: CARDB; pfam07705 28072004126 CARDB; Region: CARDB; pfam07705 28072004127 CARDB; Region: CARDB; pfam07705 28072004128 CARDB; Region: CARDB; pfam07705 28072004129 CARDB; Region: CARDB; pfam07705 28072004130 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 28072004131 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 28072004132 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072004133 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072004134 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072004135 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 28072004136 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 28072004137 FOG: PKD repeat [General function prediction only]; Region: COG3291 28072004138 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 28072004139 Calx-beta domain; Region: Calx-beta; cl02522 28072004140 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 28072004141 active site 28072004142 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 28072004143 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 28072004144 catalytic motif [active] 28072004145 Zn binding site [ion binding]; other site 28072004146 RibD C-terminal domain; Region: RibD_C; cl17279 28072004147 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 28072004148 rod shape-determining protein MreC; Provisional; Region: PRK13922 28072004149 rod shape-determining protein MreC; Region: MreC; pfam04085 28072004150 rod shape-determining protein MreB; Provisional; Region: PRK13927 28072004151 MreB and similar proteins; Region: MreB_like; cd10225 28072004152 nucleotide binding site [chemical binding]; other site 28072004153 Mg binding site [ion binding]; other site 28072004154 putative protofilament interaction site [polypeptide binding]; other site 28072004155 RodZ interaction site [polypeptide binding]; other site 28072004156 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 28072004157 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 28072004158 dimer interface [polypeptide binding]; other site 28072004159 ssDNA binding site [nucleotide binding]; other site 28072004160 tetramer (dimer of dimers) interface [polypeptide binding]; other site 28072004161 Uncharacterized conserved protein [Function unknown]; Region: COG2968 28072004162 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 28072004163 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072004164 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 28072004165 AMIN domain; Region: AMIN; pfam11741 28072004166 AMIN domain; Region: AMIN; pfam11741 28072004167 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 28072004168 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 28072004169 active site 28072004170 metal binding site [ion binding]; metal-binding site 28072004171 AMIN domain; Region: AMIN; pfam11741 28072004172 AMIN domain; Region: AMIN; pfam11741 28072004173 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 28072004174 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 28072004175 active site 28072004176 metal binding site [ion binding]; metal-binding site 28072004177 glutamate racemase; Provisional; Region: PRK00865 28072004178 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 28072004179 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 28072004180 substrate binding pocket [chemical binding]; other site 28072004181 chain length determination region; other site 28072004182 substrate-Mg2+ binding site; other site 28072004183 catalytic residues [active] 28072004184 aspartate-rich region 1; other site 28072004185 active site lid residues [active] 28072004186 aspartate-rich region 2; other site 28072004187 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 28072004188 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 28072004189 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 28072004190 hypothetical protein; Provisional; Region: PRK04323 28072004191 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 28072004192 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 28072004193 catalytic site [active] 28072004194 G-X2-G-X-G-K; other site 28072004195 Photosystem I reaction centre subunit XI; Region: PsaL; pfam02605 28072004196 photosystem I reaction center subunit IX; Provisional; Region: PRK02733 28072004197 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 28072004198 UGMP family protein; Validated; Region: PRK09604 28072004199 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 28072004200 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072004201 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 28072004202 catalytic site [active] 28072004203 Fragile site-associated protein C-terminus; Region: FSA_C; pfam10479 28072004204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072004205 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 28072004206 Coenzyme A binding pocket [chemical binding]; other site 28072004207 Tic22-like family; Region: Tic22; cl04468 28072004208 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 28072004209 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072004210 S-adenosylmethionine binding site [chemical binding]; other site 28072004211 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 28072004212 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072004213 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004214 dimer interface [polypeptide binding]; other site 28072004215 phosphorylation site [posttranslational modification] 28072004216 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 28072004217 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072004218 Coenzyme A binding pocket [chemical binding]; other site 28072004219 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 28072004220 Protein export membrane protein; Region: SecD_SecF; pfam02355 28072004221 protein-export membrane protein SecD; Region: secD; TIGR01129 28072004222 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 28072004223 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 28072004224 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 28072004225 alpha subunit interface [polypeptide binding]; other site 28072004226 TPP binding site [chemical binding]; other site 28072004227 heterodimer interface [polypeptide binding]; other site 28072004228 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 28072004229 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072004230 salt bridge; other site 28072004231 non-specific DNA binding site [nucleotide binding]; other site 28072004232 sequence-specific DNA binding site [nucleotide binding]; other site 28072004233 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 28072004234 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 28072004235 dimer interface [polypeptide binding]; other site 28072004236 active site 28072004237 Schiff base residues; other site 28072004238 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 28072004239 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 28072004240 G1 box; other site 28072004241 putative GEF interaction site [polypeptide binding]; other site 28072004242 GTP/Mg2+ binding site [chemical binding]; other site 28072004243 Switch I region; other site 28072004244 G2 box; other site 28072004245 G3 box; other site 28072004246 Switch II region; other site 28072004247 G4 box; other site 28072004248 G5 box; other site 28072004249 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 28072004250 Spinocerebellar ataxia type 10 protein domain; Region: Atx10homo_assoc; pfam09759 28072004251 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 28072004252 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 28072004253 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 28072004254 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 28072004255 putative ADP-binding pocket [chemical binding]; other site 28072004256 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 28072004257 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 28072004258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072004259 catalytic residue [active] 28072004260 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 28072004261 Permease; Region: Permease; cl00510 28072004262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 28072004263 Homeodomain-like domain; Region: HTH_32; pfam13565 28072004264 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072004265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072004266 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 28072004267 Predicted transcriptional regulator [Transcription]; Region: COG3682 28072004268 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 28072004269 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 28072004270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072004271 AAA domain; Region: AAA_21; pfam13304 28072004272 Walker A/P-loop; other site 28072004273 ATP binding site [chemical binding]; other site 28072004274 Clp protease ATP binding subunit; Region: clpC; CHL00095 28072004275 Clp amino terminal domain; Region: Clp_N; pfam02861 28072004276 Clp amino terminal domain; Region: Clp_N; pfam02861 28072004277 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072004278 Walker A motif; other site 28072004279 ATP binding site [chemical binding]; other site 28072004280 Walker B motif; other site 28072004281 arginine finger; other site 28072004282 UvrB/uvrC motif; Region: UVR; pfam02151 28072004283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072004284 Walker A motif; other site 28072004285 ATP binding site [chemical binding]; other site 28072004286 Walker B motif; other site 28072004287 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 28072004288 Protein of unknown function (DUF3288); Region: DUF3288; pfam11691 28072004289 Substrate binding subunit of ER-derived-lipid transporter; Provisional; Region: PLN03094 28072004290 mce related protein; Region: MCE; pfam02470 28072004291 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 28072004292 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 28072004293 Walker A/P-loop; other site 28072004294 ATP binding site [chemical binding]; other site 28072004295 Q-loop/lid; other site 28072004296 ABC transporter signature motif; other site 28072004297 Walker B; other site 28072004298 D-loop; other site 28072004299 H-loop/switch region; other site 28072004300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 28072004301 carotene isomerase; Region: carot_isom; TIGR02730 28072004302 DDE superfamily endonuclease; Region: DDE_5; cl17874 28072004303 Predicted membrane protein [Function unknown]; Region: COG1808 28072004304 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 28072004305 active site 28072004306 ribulose/triose binding site [chemical binding]; other site 28072004307 phosphate binding site [ion binding]; other site 28072004308 substrate (anthranilate) binding pocket [chemical binding]; other site 28072004309 product (indole) binding pocket [chemical binding]; other site 28072004310 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 28072004311 chorismate binding enzyme; Region: Chorismate_bind; cl10555 28072004312 Response regulator receiver domain; Region: Response_reg; pfam00072 28072004313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004314 active site 28072004315 phosphorylation site [posttranslational modification] 28072004316 intermolecular recognition site; other site 28072004317 dimerization interface [polypeptide binding]; other site 28072004318 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 28072004319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072004320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072004321 Protein of unknown function (DUF3082); Region: DUF3082; pfam11282 28072004322 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK02534 28072004323 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 28072004324 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 28072004325 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 28072004326 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 28072004327 S-adenosylmethionine binding site [chemical binding]; other site 28072004328 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 28072004329 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 28072004330 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072004331 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072004332 active site 28072004333 ATP binding site [chemical binding]; other site 28072004334 substrate binding site [chemical binding]; other site 28072004335 activation loop (A-loop); other site 28072004336 Uncharacterized conserved protein [Function unknown]; Region: COG1262 28072004337 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 28072004338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 28072004339 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072004340 putative active site [active] 28072004341 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 28072004342 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072004343 putative active site [active] 28072004344 heme pocket [chemical binding]; other site 28072004345 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004346 putative active site [active] 28072004347 heme pocket [chemical binding]; other site 28072004348 PAS fold; Region: PAS_4; pfam08448 28072004349 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004350 putative active site [active] 28072004351 heme pocket [chemical binding]; other site 28072004352 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004353 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 28072004354 putative active site [active] 28072004355 heme pocket [chemical binding]; other site 28072004356 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004357 putative active site [active] 28072004358 heme pocket [chemical binding]; other site 28072004359 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004360 dimer interface [polypeptide binding]; other site 28072004361 phosphorylation site [posttranslational modification] 28072004362 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004363 ATP binding site [chemical binding]; other site 28072004364 Mg2+ binding site [ion binding]; other site 28072004365 G-X-G motif; other site 28072004366 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072004367 active site 28072004368 catalytic residues [active] 28072004369 DNA binding site [nucleotide binding] 28072004370 Int/Topo IB signature motif; other site 28072004371 Sporulation and spore germination; Region: Germane; cl11253 28072004372 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 28072004373 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 28072004374 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072004375 P-loop; other site 28072004376 Magnesium ion binding site [ion binding]; other site 28072004377 NDF6 (NDH-dependent flow 6); Provisional; Region: PLN00180 28072004378 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 28072004379 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072004380 Uncharacterized conserved protein [Function unknown]; Region: COG0327 28072004381 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 28072004382 Uncharacterized conserved protein [Function unknown]; Region: COG0432 28072004383 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 28072004384 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 28072004385 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 28072004386 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072004387 catalytic residue [active] 28072004388 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 28072004389 RNase_H superfamily; Region: RNase_H_2; pfam13482 28072004390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 28072004391 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 28072004392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072004393 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072004394 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072004395 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072004396 hypothetical protein; Reviewed; Region: PRK12275 28072004397 four helix bundle protein; Region: TIGR02436 28072004398 Homeodomain-like domain; Region: HTH_32; pfam13565 28072004399 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072004400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072004401 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072004402 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072004403 active site 28072004404 ATP binding site [chemical binding]; other site 28072004405 substrate binding site [chemical binding]; other site 28072004406 activation loop (A-loop); other site 28072004407 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072004408 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072004409 active site 28072004410 ATP binding site [chemical binding]; other site 28072004411 substrate binding site [chemical binding]; other site 28072004412 activation loop (A-loop); other site 28072004413 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 28072004414 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 28072004415 HIGH motif; other site 28072004416 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 28072004417 active site 28072004418 KMSKS motif; other site 28072004419 cell division protein; Validated; Region: ftsH; CHL00176 28072004420 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072004421 Walker A motif; other site 28072004422 ATP binding site [chemical binding]; other site 28072004423 Walker B motif; other site 28072004424 arginine finger; other site 28072004425 Peptidase family M41; Region: Peptidase_M41; pfam01434 28072004426 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 28072004427 proline aminopeptidase P II; Provisional; Region: PRK10879 28072004428 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 28072004429 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 28072004430 active site 28072004431 Family description; Region: VCBS; pfam13517 28072004432 Family description; Region: VCBS; pfam13517 28072004433 Family description; Region: VCBS; pfam13517 28072004434 Family description; Region: VCBS; pfam13517 28072004435 Family description; Region: VCBS; pfam13517 28072004436 Family description; Region: VCBS; pfam13517 28072004437 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 28072004438 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 28072004439 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 28072004440 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072004441 active site 28072004442 metal binding site [ion binding]; metal-binding site 28072004443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 28072004444 FIST N domain; Region: FIST; pfam08495 28072004445 FIST C domain; Region: FIST_C; pfam10442 28072004446 CP12 domain; Region: CP12; pfam02672 28072004447 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 28072004448 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 28072004449 GMP synthase; Reviewed; Region: guaA; PRK00074 28072004450 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 28072004451 AMP/PPi binding site [chemical binding]; other site 28072004452 candidate oxyanion hole; other site 28072004453 catalytic triad [active] 28072004454 potential glutamine specificity residues [chemical binding]; other site 28072004455 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 28072004456 ATP Binding subdomain [chemical binding]; other site 28072004457 Ligand Binding sites [chemical binding]; other site 28072004458 Dimerization subdomain; other site 28072004459 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 28072004460 active site 28072004461 NTP binding site [chemical binding]; other site 28072004462 metal binding triad [ion binding]; metal-binding site 28072004463 antibiotic binding site [chemical binding]; other site 28072004464 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072004465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004466 active site 28072004467 phosphorylation site [posttranslational modification] 28072004468 intermolecular recognition site; other site 28072004469 dimerization interface [polypeptide binding]; other site 28072004470 hypothetical protein; Provisional; Region: PRK13560 28072004471 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004472 putative active site [active] 28072004473 heme pocket [chemical binding]; other site 28072004474 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004475 putative active site [active] 28072004476 heme pocket [chemical binding]; other site 28072004477 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004478 putative active site [active] 28072004479 heme pocket [chemical binding]; other site 28072004480 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004481 putative active site [active] 28072004482 heme pocket [chemical binding]; other site 28072004483 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004484 dimer interface [polypeptide binding]; other site 28072004485 phosphorylation site [posttranslational modification] 28072004486 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004487 ATP binding site [chemical binding]; other site 28072004488 Mg2+ binding site [ion binding]; other site 28072004489 G-X-G motif; other site 28072004490 Response regulator receiver domain; Region: Response_reg; pfam00072 28072004491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004492 active site 28072004493 phosphorylation site [posttranslational modification] 28072004494 intermolecular recognition site; other site 28072004495 dimerization interface [polypeptide binding]; other site 28072004496 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 28072004497 GAF domain; Region: GAF; pfam01590 28072004498 Phytochrome region; Region: PHY; pfam00360 28072004499 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004500 dimer interface [polypeptide binding]; other site 28072004501 phosphorylation site [posttranslational modification] 28072004502 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004503 ATP binding site [chemical binding]; other site 28072004504 Mg2+ binding site [ion binding]; other site 28072004505 G-X-G motif; other site 28072004506 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 28072004507 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 28072004508 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 28072004509 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 28072004510 Protein of unknown function (DUF751); Region: DUF751; pfam05421 28072004511 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 28072004512 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 28072004513 hypothetical protein; Provisional; Region: PRK04194 28072004514 NADH dehydrogenase transmembrane subunit; Region: NdhL; pfam10716 28072004515 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 28072004516 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 28072004517 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 28072004518 substrate binding site [chemical binding]; other site 28072004519 active site 28072004520 catalytic residues [active] 28072004521 heterodimer interface [polypeptide binding]; other site 28072004522 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072004523 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072004524 active site 28072004525 ATP binding site [chemical binding]; other site 28072004526 substrate binding site [chemical binding]; other site 28072004527 activation loop (A-loop); other site 28072004528 M28 Zn-Peptidases; Region: M28_like_1; cd05640 28072004529 Peptidase family M28; Region: Peptidase_M28; pfam04389 28072004530 metal binding site [ion binding]; metal-binding site 28072004531 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072004532 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072004533 structural tetrad; other site 28072004534 Uncharacterized conserved protein [Function unknown]; Region: COG2836 28072004535 Predicted membrane protein [Function unknown]; Region: COG2717 28072004536 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 28072004537 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 28072004538 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 28072004539 NAD binding site [chemical binding]; other site 28072004540 homodimer interface [polypeptide binding]; other site 28072004541 active site 28072004542 substrate binding site [chemical binding]; other site 28072004543 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072004544 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072004545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072004546 Walker A/P-loop; other site 28072004547 ATP binding site [chemical binding]; other site 28072004548 Q-loop/lid; other site 28072004549 ABC transporter signature motif; other site 28072004550 Walker B; other site 28072004551 D-loop; other site 28072004552 H-loop/switch region; other site 28072004553 GDP/GTP exchange factor Sec2p; Region: Sec2p; pfam06428 28072004554 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004555 dimer interface [polypeptide binding]; other site 28072004556 phosphorylation site [posttranslational modification] 28072004557 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004558 ATP binding site [chemical binding]; other site 28072004559 Mg2+ binding site [ion binding]; other site 28072004560 G-X-G motif; other site 28072004561 HupE / UreJ protein; Region: HupE_UreJ; cl01011 28072004562 Bacterial sugar transferase; Region: Bac_transf; pfam02397 28072004563 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 28072004564 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 28072004565 Peptidase family M48; Region: Peptidase_M48; cl12018 28072004566 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 28072004567 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 28072004568 DNA methylase; Region: N6_N4_Mtase; pfam01555 28072004569 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 28072004570 Repair protein; Region: Repair_PSII; pfam04536 28072004571 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 28072004572 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 28072004573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 28072004574 Protein of unknown function, DUF482; Region: DUF482; pfam04339 28072004575 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 28072004576 RibD C-terminal domain; Region: RibD_C; cl17279 28072004577 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004578 dimer interface [polypeptide binding]; other site 28072004579 phosphorylation site [posttranslational modification] 28072004580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004581 ATP binding site [chemical binding]; other site 28072004582 Mg2+ binding site [ion binding]; other site 28072004583 G-X-G motif; other site 28072004584 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 28072004585 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 28072004586 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 28072004587 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 28072004588 dsRNA-specific ribonuclease [Transcription]; Region: Rnc; COG0571 28072004589 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 28072004590 dimerization interface [polypeptide binding]; other site 28072004591 active site 28072004592 metal binding site [ion binding]; metal-binding site 28072004593 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 28072004594 dsRNA binding site [nucleotide binding]; other site 28072004595 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 28072004596 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 28072004597 oligomer interface [polypeptide binding]; other site 28072004598 metal binding site [ion binding]; metal-binding site 28072004599 metal binding site [ion binding]; metal-binding site 28072004600 Cl binding site [ion binding]; other site 28072004601 aspartate ring; other site 28072004602 basic sphincter; other site 28072004603 putative hydrophobic gate; other site 28072004604 periplasmic entrance; other site 28072004605 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 28072004606 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 28072004607 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 28072004608 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 28072004609 Protein of unknown function (DUF3181); Region: DUF3181; pfam11378 28072004610 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 28072004611 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 28072004612 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 28072004613 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cd00110 28072004614 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 28072004615 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 28072004616 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 28072004617 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 28072004618 active site 28072004619 HIGH motif; other site 28072004620 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 28072004621 KMSKS motif; other site 28072004622 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 28072004623 tRNA binding surface [nucleotide binding]; other site 28072004624 anticodon binding site; other site 28072004625 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 28072004626 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072004627 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 28072004628 photosystem II reaction center protein Psb28; Provisional; Region: PRK13612 28072004629 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 28072004630 MPT binding site; other site 28072004631 trimer interface [polypeptide binding]; other site 28072004632 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 28072004633 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 28072004634 G1 box; other site 28072004635 GTP/Mg2+ binding site [chemical binding]; other site 28072004636 Switch I region; other site 28072004637 G2 box; other site 28072004638 Switch II region; other site 28072004639 G3 box; other site 28072004640 G4 box; other site 28072004641 G5 box; other site 28072004642 Domain of unknown function (DUF697); Region: DUF697; pfam05128 28072004643 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 28072004644 Protein of unknown function (DUF433); Region: DUF433; cl01030 28072004645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072004646 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 28072004647 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 28072004648 active site 28072004649 homodimer interface [polypeptide binding]; other site 28072004650 catalytic site [active] 28072004651 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 28072004652 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 28072004653 active site 28072004654 catalytic residues [active] 28072004655 D-alanyl-D-alanine dipeptidase [Cell envelope biogenesis, outer membrane]; Region: DdpX; COG2173 28072004656 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12902 28072004657 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 28072004658 ATP binding site [chemical binding]; other site 28072004659 putative Mg++ binding site [ion binding]; other site 28072004660 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 28072004661 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 28072004662 Dihaem cytochrome c; Region: DHC; pfam09626 28072004663 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 28072004664 MoxR-like ATPases [General function prediction only]; Region: COG0714 28072004665 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072004666 ATP binding site [chemical binding]; other site 28072004667 Walker A motif; other site 28072004668 Walker B motif; other site 28072004669 arginine finger; other site 28072004670 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 28072004671 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 28072004672 active site 28072004673 Riboflavin kinase; Region: Flavokinase; pfam01687 28072004674 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 28072004675 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 28072004676 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 28072004677 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 28072004678 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 28072004679 dimer interface [polypeptide binding]; other site 28072004680 motif 1; other site 28072004681 active site 28072004682 motif 2; other site 28072004683 motif 3; other site 28072004684 AAA domain; Region: AAA_17; pfam13207 28072004685 AAA domain; Region: AAA_33; pfam13671 28072004686 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072004687 putative active site [active] 28072004688 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072004689 active site 28072004690 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 28072004691 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072004692 ATP binding site [chemical binding]; other site 28072004693 putative Mg++ binding site [ion binding]; other site 28072004694 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072004695 nucleotide binding region [chemical binding]; other site 28072004696 ATP-binding site [chemical binding]; other site 28072004697 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 28072004698 diaminopimelate epimerase; Provisional; Region: PRK13577 28072004699 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 28072004700 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 28072004701 SseB protein; Region: SseB; cl06279 28072004702 2-isopropylmalate synthase; Validated; Region: PRK00915 28072004703 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 28072004704 active site 28072004705 catalytic residues [active] 28072004706 metal binding site [ion binding]; metal-binding site 28072004707 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 28072004708 Uncharacterized conserved protein [Function unknown]; Region: COG1432 28072004709 LabA_like proteins; Region: LabA; cd10911 28072004710 putative metal binding site [ion binding]; other site 28072004711 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072004712 CHASE2 domain; Region: CHASE2; pfam05226 28072004713 Protein kinase domain; Region: Pkinase; pfam00069 28072004714 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072004715 active site 28072004716 ATP binding site [chemical binding]; other site 28072004717 substrate binding site [chemical binding]; other site 28072004718 activation loop (A-loop); other site 28072004719 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 28072004720 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072004721 TPR motif; other site 28072004722 binding surface 28072004723 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 28072004724 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 28072004725 alpha-gamma subunit interface [polypeptide binding]; other site 28072004726 beta-gamma subunit interface [polypeptide binding]; other site 28072004727 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 28072004728 gamma-beta subunit interface [polypeptide binding]; other site 28072004729 alpha-beta subunit interface [polypeptide binding]; other site 28072004730 Protein of unknown function DUF91; Region: DUF91; cl00709 28072004731 urease subunit alpha; Reviewed; Region: ureC; PRK13207 28072004732 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 28072004733 subunit interactions [polypeptide binding]; other site 28072004734 active site 28072004735 flap region; other site 28072004736 Response regulator receiver domain; Region: Response_reg; pfam00072 28072004737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004738 active site 28072004739 phosphorylation site [posttranslational modification] 28072004740 intermolecular recognition site; other site 28072004741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072004742 dimerization interface [polypeptide binding]; other site 28072004743 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004744 dimer interface [polypeptide binding]; other site 28072004745 phosphorylation site [posttranslational modification] 28072004746 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004747 ATP binding site [chemical binding]; other site 28072004748 Mg2+ binding site [ion binding]; other site 28072004749 G-X-G motif; other site 28072004750 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 28072004751 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 28072004752 NAD(P) binding site [chemical binding]; other site 28072004753 catalytic residues [active] 28072004754 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 28072004755 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 28072004756 Moco binding site; other site 28072004757 metal coordination site [ion binding]; other site 28072004758 ribosomal protein L32; Validated; Region: rpl32; CHL00152 28072004759 Caspase domain; Region: Peptidase_C14; pfam00656 28072004760 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 28072004761 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 28072004762 Low molecular weight phosphatase family; Region: LMWPc; cd00115 28072004763 active site 28072004764 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 28072004765 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072004766 putative metal binding site [ion binding]; other site 28072004767 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 28072004768 arsenical-resistance protein; Region: acr3; TIGR00832 28072004769 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072004770 putative substrate translocation pore; other site 28072004771 Major Facilitator Superfamily; Region: MFS_1; pfam07690 28072004772 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 28072004773 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 28072004774 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 28072004775 PBP superfamily domain; Region: PBP_like_2; cl17296 28072004776 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072004777 dimerization interface [polypeptide binding]; other site 28072004778 putative DNA binding site [nucleotide binding]; other site 28072004779 putative Zn2+ binding site [ion binding]; other site 28072004780 aspartate aminotransferase; Provisional; Region: PRK05942 28072004781 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072004782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072004783 homodimer interface [polypeptide binding]; other site 28072004784 catalytic residue [active] 28072004785 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 28072004786 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 28072004787 putative active site [active] 28072004788 metal binding site [ion binding]; metal-binding site 28072004789 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072004790 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072004791 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072004792 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072004793 active site 28072004794 ATP binding site [chemical binding]; other site 28072004795 substrate binding site [chemical binding]; other site 28072004796 activation loop (A-loop); other site 28072004797 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072004798 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072004799 structural tetrad; other site 28072004800 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072004801 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072004802 active site 28072004803 ATP binding site [chemical binding]; other site 28072004804 substrate binding site [chemical binding]; other site 28072004805 activation loop (A-loop); other site 28072004806 GUN4-like; Region: GUN4; pfam05419 28072004807 XisI protein; Region: XisI; pfam08869 28072004808 Protein of function (DUF2518); Region: DUF2518; pfam10726 28072004809 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 28072004810 O-Antigen ligase; Region: Wzy_C; pfam04932 28072004811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 28072004812 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 28072004813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072004814 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 28072004815 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 28072004816 putative dimer interface [polypeptide binding]; other site 28072004817 putative [2Fe-2S] cluster binding site [ion binding]; other site 28072004818 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 28072004819 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 28072004820 nucleotide binding site [chemical binding]; other site 28072004821 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 28072004822 homooctamer interface [polypeptide binding]; other site 28072004823 active site 28072004824 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 28072004825 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 28072004826 dimer interface [polypeptide binding]; other site 28072004827 tetramer interface [polypeptide binding]; other site 28072004828 PYR/PP interface [polypeptide binding]; other site 28072004829 TPP binding site [chemical binding]; other site 28072004830 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 28072004831 TPP-binding site; other site 28072004832 succinyldiaminopimelate transaminase; Validated; Region: PRK07366 28072004833 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072004834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072004835 homodimer interface [polypeptide binding]; other site 28072004836 catalytic residue [active] 28072004837 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 28072004838 catalytic residues [active] 28072004839 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 28072004840 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 28072004841 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072004842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072004843 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072004844 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072004845 DNA binding residues [nucleotide binding] 28072004846 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072004847 GAF domain; Region: GAF; pfam01590 28072004848 hypothetical protein; Provisional; Region: PRK13560 28072004849 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 28072004850 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004851 putative active site [active] 28072004852 heme pocket [chemical binding]; other site 28072004853 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 28072004854 putative active site [active] 28072004855 heme pocket [chemical binding]; other site 28072004856 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004857 putative active site [active] 28072004858 heme pocket [chemical binding]; other site 28072004859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004860 ATP binding site [chemical binding]; other site 28072004861 Mg2+ binding site [ion binding]; other site 28072004862 G-X-G motif; other site 28072004863 Response regulator receiver domain; Region: Response_reg; pfam00072 28072004864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004865 active site 28072004866 phosphorylation site [posttranslational modification] 28072004867 intermolecular recognition site; other site 28072004868 dimerization interface [polypeptide binding]; other site 28072004869 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072004870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072004871 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 28072004872 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 28072004873 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 28072004874 C-terminal domain interface [polypeptide binding]; other site 28072004875 GSH binding site (G-site) [chemical binding]; other site 28072004876 dimer interface [polypeptide binding]; other site 28072004877 Glutathione S-transferase, C-terminal domain; Region: GST_C; pfam00043 28072004878 N-terminal domain interface [polypeptide binding]; other site 28072004879 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 28072004880 Glucose inhibited division protein A; Region: GIDA; pfam01134 28072004881 hypothetical protein; Provisional; Region: PRK06208 28072004882 intersubunit interface [polypeptide binding]; other site 28072004883 active site 28072004884 Zn2+ binding site [ion binding]; other site 28072004885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 28072004886 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072004887 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072004888 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 28072004889 HsdM N-terminal domain; Region: HsdM_N; pfam12161 28072004890 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 28072004891 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072004892 putative active site [active] 28072004893 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 28072004894 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 28072004895 putative active site [active] 28072004896 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 28072004897 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 28072004898 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 28072004899 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072004900 non-specific DNA binding site [nucleotide binding]; other site 28072004901 salt bridge; other site 28072004902 sequence-specific DNA binding site [nucleotide binding]; other site 28072004903 YcfA-like protein; Region: YcfA; pfam07927 28072004904 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 28072004905 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 28072004906 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 28072004907 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072004908 ATP binding site [chemical binding]; other site 28072004909 putative Mg++ binding site [ion binding]; other site 28072004910 Protein of unknown function DUF45; Region: DUF45; pfam01863 28072004911 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072004912 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 28072004913 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072004914 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072004915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004916 active site 28072004917 phosphorylation site [posttranslational modification] 28072004918 intermolecular recognition site; other site 28072004919 dimerization interface [polypeptide binding]; other site 28072004920 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072004921 DNA binding residues [nucleotide binding] 28072004922 dimerization interface [polypeptide binding]; other site 28072004923 Response regulator receiver domain; Region: Response_reg; pfam00072 28072004924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004925 active site 28072004926 phosphorylation site [posttranslational modification] 28072004927 intermolecular recognition site; other site 28072004928 dimerization interface [polypeptide binding]; other site 28072004929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 28072004930 Histidine kinase; Region: HisKA_3; pfam07730 28072004931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004932 ATP binding site [chemical binding]; other site 28072004933 Mg2+ binding site [ion binding]; other site 28072004934 G-X-G motif; other site 28072004935 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072004936 putative active site [active] 28072004937 heme pocket [chemical binding]; other site 28072004938 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072004939 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072004940 dimer interface [polypeptide binding]; other site 28072004941 phosphorylation site [posttranslational modification] 28072004942 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072004943 ATP binding site [chemical binding]; other site 28072004944 Mg2+ binding site [ion binding]; other site 28072004945 G-X-G motif; other site 28072004946 Response regulator receiver domain; Region: Response_reg; pfam00072 28072004947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072004948 active site 28072004949 phosphorylation site [posttranslational modification] 28072004950 intermolecular recognition site; other site 28072004951 dimerization interface [polypeptide binding]; other site 28072004952 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 28072004953 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 28072004954 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 28072004955 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072004956 binding surface 28072004957 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072004958 TPR motif; other site 28072004959 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072004960 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072004961 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072004962 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072004963 binding surface 28072004964 TPR motif; other site 28072004965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 28072004966 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 28072004967 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072004968 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 28072004969 substrate binding pocket [chemical binding]; other site 28072004970 membrane-bound complex binding site; other site 28072004971 hinge residues; other site 28072004972 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072004973 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 28072004974 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072004975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072004976 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072004977 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072004978 Cytochrome P450; Region: p450; cl12078 28072004979 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 28072004980 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072004981 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 28072004982 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 28072004983 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 28072004984 classical (c) SDRs; Region: SDR_c; cd05233 28072004985 NAD(P) binding site [chemical binding]; other site 28072004986 active site 28072004987 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 28072004988 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 28072004989 XdhC Rossmann domain; Region: XdhC_C; pfam13478 28072004990 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072004991 Ca2+ binding site [ion binding]; other site 28072004992 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072004993 Ca2+ binding site [ion binding]; other site 28072004994 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072004995 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072004996 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072004997 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072004998 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072004999 RHS Repeat; Region: RHS_repeat; pfam05593 28072005000 RHS Repeat; Region: RHS_repeat; pfam05593 28072005001 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072005002 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072005003 RHS Repeat; Region: RHS_repeat; pfam05593 28072005004 RHS Repeat; Region: RHS_repeat; pfam05593 28072005005 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072005006 RHS Repeat; Region: RHS_repeat; pfam05593 28072005007 RHS Repeat; Region: RHS_repeat; pfam05593 28072005008 RHS Repeat; Region: RHS_repeat; pfam05593 28072005009 RHS Repeat; Region: RHS_repeat; pfam05593 28072005010 RHS Repeat; Region: RHS_repeat; pfam05593 28072005011 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072005012 RHS Repeat; Region: RHS_repeat; pfam05593 28072005013 RHS Repeat; Region: RHS_repeat; pfam05593 28072005014 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 28072005015 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 28072005016 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 28072005017 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 28072005018 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 28072005019 Ligand binding site; other site 28072005020 metal-binding site 28072005021 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 28072005022 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 28072005023 Predicted membrane protein [Function unknown]; Region: COG4270 28072005024 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 28072005025 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 28072005026 putative ligand binding site [chemical binding]; other site 28072005027 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 28072005028 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 28072005029 Walker A/P-loop; other site 28072005030 ATP binding site [chemical binding]; other site 28072005031 Q-loop/lid; other site 28072005032 ABC transporter signature motif; other site 28072005033 Walker B; other site 28072005034 D-loop; other site 28072005035 H-loop/switch region; other site 28072005036 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 28072005037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 28072005038 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 28072005039 TM-ABC transporter signature motif; other site 28072005040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 28072005041 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 28072005042 TM-ABC transporter signature motif; other site 28072005043 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072005044 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072005045 active site 28072005046 ATP binding site [chemical binding]; other site 28072005047 substrate binding site [chemical binding]; other site 28072005048 activation loop (A-loop); other site 28072005049 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072005050 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 28072005051 putative acyl-acceptor binding pocket; other site 28072005052 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 28072005053 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 28072005054 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072005055 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 28072005056 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072005057 motif II; other site 28072005058 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 28072005059 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072005060 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072005061 ligand binding site [chemical binding]; other site 28072005062 flexible hinge region; other site 28072005063 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 28072005064 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 28072005065 PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to...; Region: PDZ_glycyl_aminopeptidase; cd00990 28072005066 protein binding site [polypeptide binding]; other site 28072005067 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 28072005068 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 28072005069 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 28072005070 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072005071 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 28072005072 protein binding site [polypeptide binding]; other site 28072005073 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 28072005074 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 28072005075 sulfate transport protein; Provisional; Region: cysT; CHL00187 28072005076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072005077 dimer interface [polypeptide binding]; other site 28072005078 conserved gate region; other site 28072005079 putative PBP binding loops; other site 28072005080 ABC-ATPase subunit interface; other site 28072005081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072005082 dimer interface [polypeptide binding]; other site 28072005083 conserved gate region; other site 28072005084 putative PBP binding loops; other site 28072005085 ABC-ATPase subunit interface; other site 28072005086 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 28072005087 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 28072005088 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 28072005089 active site 28072005090 AAA ATPase domain; Region: AAA_16; pfam13191 28072005091 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 28072005092 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 28072005093 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072005094 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 28072005095 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072005096 motif II; other site 28072005097 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 28072005098 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072005099 Ligand Binding Site [chemical binding]; other site 28072005100 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 28072005101 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 28072005102 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072005103 Walker A motif; other site 28072005104 ATP binding site [chemical binding]; other site 28072005105 Walker B motif; other site 28072005106 arginine finger; other site 28072005107 Peptidase family M41; Region: Peptidase_M41; pfam01434 28072005108 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072005109 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072005110 structural tetrad; other site 28072005111 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072005112 structural tetrad; other site 28072005113 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072005114 WD domain, G-beta repeat; Region: WD40; pfam00400 28072005115 Domain of unknown function (DUF4278); Region: DUF4278; pfam14105 28072005116 AAA ATPase domain; Region: AAA_16; pfam13191 28072005117 NACHT domain; Region: NACHT; pfam05729 28072005118 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072005119 WD40 repeats; Region: WD40; smart00320 28072005120 WD40 repeats; Region: WD40; smart00320 28072005121 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072005122 structural tetrad; other site 28072005123 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072005124 structural tetrad; other site 28072005125 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072005126 WD40 repeats; Region: WD40; smart00320 28072005127 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 28072005128 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072005129 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072005130 Steroid receptor RNA activator (SRA1); Region: SRA1; pfam07304 28072005131 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072005132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005133 active site 28072005134 phosphorylation site [posttranslational modification] 28072005135 intermolecular recognition site; other site 28072005136 dimerization interface [polypeptide binding]; other site 28072005137 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072005138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005139 active site 28072005140 phosphorylation site [posttranslational modification] 28072005141 intermolecular recognition site; other site 28072005142 dimerization interface [polypeptide binding]; other site 28072005143 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072005144 DNA binding site [nucleotide binding] 28072005145 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072005146 putative binding surface; other site 28072005147 active site 28072005148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005149 active site 28072005150 phosphorylation site [posttranslational modification] 28072005151 intermolecular recognition site; other site 28072005152 dimerization interface [polypeptide binding]; other site 28072005153 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005155 active site 28072005156 phosphorylation site [posttranslational modification] 28072005157 intermolecular recognition site; other site 28072005158 dimerization interface [polypeptide binding]; other site 28072005159 PAS domain S-box; Region: sensory_box; TIGR00229 28072005160 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005161 putative active site [active] 28072005162 heme pocket [chemical binding]; other site 28072005163 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072005164 GAF domain; Region: GAF; pfam01590 28072005165 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005166 PAS fold; Region: PAS_3; pfam08447 28072005167 putative active site [active] 28072005168 heme pocket [chemical binding]; other site 28072005169 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005170 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072005171 putative active site [active] 28072005172 heme pocket [chemical binding]; other site 28072005173 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005174 dimer interface [polypeptide binding]; other site 28072005175 phosphorylation site [posttranslational modification] 28072005176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005177 ATP binding site [chemical binding]; other site 28072005178 Mg2+ binding site [ion binding]; other site 28072005179 G-X-G motif; other site 28072005180 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005182 active site 28072005183 phosphorylation site [posttranslational modification] 28072005184 intermolecular recognition site; other site 28072005185 dimerization interface [polypeptide binding]; other site 28072005186 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072005187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005188 active site 28072005189 phosphorylation site [posttranslational modification] 28072005190 intermolecular recognition site; other site 28072005191 dimerization interface [polypeptide binding]; other site 28072005192 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072005193 Ligand Binding Site [chemical binding]; other site 28072005194 bidirectional hydrogenase complex protein HoxE; Reviewed; Region: PRK07571 28072005195 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 28072005196 putative dimer interface [polypeptide binding]; other site 28072005197 [2Fe-2S] cluster binding site [ion binding]; other site 28072005198 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 28072005199 dimer interface [polypeptide binding]; other site 28072005200 [2Fe-2S] cluster binding site [ion binding]; other site 28072005201 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 28072005202 SLBB domain; Region: SLBB; pfam10531 28072005203 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 28072005204 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 28072005205 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072005206 catalytic loop [active] 28072005207 iron binding site [ion binding]; other site 28072005208 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 28072005209 Protein of unknown function (DUF3122); Region: DUF3122; pfam11320 28072005210 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 28072005211 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 28072005212 FOG: CBS domain [General function prediction only]; Region: COG0517 28072005213 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 28072005214 CP12 domain; Region: CP12; pfam02672 28072005215 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 28072005216 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 28072005217 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 28072005218 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 28072005219 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072005220 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 28072005221 Phosphotransferase enzyme family; Region: APH; pfam01636 28072005222 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 28072005223 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072005224 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072005225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072005226 Walker A/P-loop; other site 28072005227 ATP binding site [chemical binding]; other site 28072005228 Q-loop/lid; other site 28072005229 ABC transporter signature motif; other site 28072005230 Walker B; other site 28072005231 D-loop; other site 28072005232 H-loop/switch region; other site 28072005233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005234 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072005235 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 28072005236 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 28072005237 putative ADP-binding pocket [chemical binding]; other site 28072005238 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 28072005239 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 28072005240 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072005241 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072005242 dimerization interface [polypeptide binding]; other site 28072005243 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005244 dimer interface [polypeptide binding]; other site 28072005245 phosphorylation site [posttranslational modification] 28072005246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005247 ATP binding site [chemical binding]; other site 28072005248 Mg2+ binding site [ion binding]; other site 28072005249 G-X-G motif; other site 28072005250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072005251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005252 active site 28072005253 phosphorylation site [posttranslational modification] 28072005254 intermolecular recognition site; other site 28072005255 dimerization interface [polypeptide binding]; other site 28072005256 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072005257 DNA binding site [nucleotide binding] 28072005258 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072005259 dimerization interface [polypeptide binding]; other site 28072005260 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 28072005261 Flavoprotein; Region: Flavoprotein; pfam02441 28072005262 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 28072005263 Protein of unknown function (DUF2555); Region: DUF2555; pfam10742 28072005264 Predicted esterase [General function prediction only]; Region: COG0400 28072005265 putative hydrolase; Provisional; Region: PRK11460 28072005266 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 28072005267 dimer interface [polypeptide binding]; other site 28072005268 motif 1; other site 28072005269 active site 28072005270 motif 2; other site 28072005271 motif 3; other site 28072005272 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 28072005273 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 28072005274 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 28072005275 Competence protein; Region: Competence; pfam03772 28072005276 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 28072005277 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072005278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005279 active site 28072005280 phosphorylation site [posttranslational modification] 28072005281 intermolecular recognition site; other site 28072005282 dimerization interface [polypeptide binding]; other site 28072005283 PAS fold; Region: PAS; pfam00989 28072005284 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005285 putative active site [active] 28072005286 heme pocket [chemical binding]; other site 28072005287 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072005288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072005289 metal binding site [ion binding]; metal-binding site 28072005290 active site 28072005291 I-site; other site 28072005292 maltose O-acetyltransferase; Provisional; Region: PRK10092 28072005293 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 28072005294 active site 28072005295 substrate binding site [chemical binding]; other site 28072005296 trimer interface [polypeptide binding]; other site 28072005297 CoA binding site [chemical binding]; other site 28072005298 Calcium binding; Region: Calci_bind_CcbP; pfam11535 28072005299 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 28072005300 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 28072005301 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 28072005302 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 28072005303 substrate binding site [chemical binding]; other site 28072005304 dimer interface [polypeptide binding]; other site 28072005305 ATP binding site [chemical binding]; other site 28072005306 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 28072005307 nucleoside/Zn binding site; other site 28072005308 dimer interface [polypeptide binding]; other site 28072005309 catalytic motif [active] 28072005310 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 28072005311 active site 28072005312 dimerization interface [polypeptide binding]; other site 28072005313 PemK-like protein; Region: PemK; pfam02452 28072005314 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 28072005315 dimer interface [polypeptide binding]; other site 28072005316 ADP-ribose binding site [chemical binding]; other site 28072005317 active site 28072005318 nudix motif; other site 28072005319 metal binding site [ion binding]; metal-binding site 28072005320 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 28072005321 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 28072005322 active site 28072005323 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 28072005324 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 28072005325 metal binding site 2 [ion binding]; metal-binding site 28072005326 putative DNA binding helix; other site 28072005327 metal binding site 1 [ion binding]; metal-binding site 28072005328 dimer interface [polypeptide binding]; other site 28072005329 structural Zn2+ binding site [ion binding]; other site 28072005330 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 28072005331 catalytic triad [active] 28072005332 dimer interface [polypeptide binding]; other site 28072005333 glutathione reductase; Validated; Region: PRK06116 28072005334 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072005335 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 28072005336 Peptidase family M48; Region: Peptidase_M48; cl12018 28072005337 Circadian oscillating protein COP23; Region: COP23; pfam14218 28072005338 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072005339 active site 28072005340 metal binding site [ion binding]; metal-binding site 28072005341 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 28072005342 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 28072005343 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 28072005344 Phytase; Region: Phytase; cl17685 28072005345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 28072005346 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 28072005347 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 28072005348 putative active site [active] 28072005349 catalytic site [active] 28072005350 putative metal binding site [ion binding]; other site 28072005351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 28072005352 Calx-beta domain; Region: Calx-beta; cl02522 28072005353 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 28072005354 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072005355 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072005356 ligand binding site [chemical binding]; other site 28072005357 flexible hinge region; other site 28072005358 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072005359 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 28072005360 putative active site [active] 28072005361 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072005362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072005363 Walker A/P-loop; other site 28072005364 ATP binding site [chemical binding]; other site 28072005365 Q-loop/lid; other site 28072005366 ABC transporter signature motif; other site 28072005367 Walker B; other site 28072005368 D-loop; other site 28072005369 H-loop/switch region; other site 28072005370 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072005371 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 28072005372 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072005373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 28072005374 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 28072005375 putative active site [active] 28072005376 homotetrameric interface [polypeptide binding]; other site 28072005377 metal binding site [ion binding]; metal-binding site 28072005378 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 28072005379 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 28072005380 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 28072005381 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 28072005382 metal binding site [ion binding]; metal-binding site 28072005383 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 28072005384 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072005385 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072005386 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072005387 structural tetrad; other site 28072005388 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 28072005389 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 28072005390 P-loop, Walker A motif; other site 28072005391 Base recognition motif; other site 28072005392 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 28072005393 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072005394 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 28072005395 photosystem I reaction center subunit X; Reviewed; Region: PRK13214 28072005396 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072005397 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 28072005398 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 28072005399 active site 28072005400 metal binding site [ion binding]; metal-binding site 28072005401 AAA domain; Region: AAA_14; pfam13173 28072005402 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 28072005403 dihydrodipicolinate reductase; Provisional; Region: PRK00048 28072005404 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 28072005405 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 28072005406 precorrin-8X methylmutase; Validated; Region: PRK05953 28072005407 Precorrin-8X methylmutase; Region: CbiC; pfam02570 28072005408 Repair protein; Region: Repair_PSII; pfam04536 28072005409 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 28072005410 Caspase domain; Region: Peptidase_C14; pfam00656 28072005411 Uncharacterized conserved protein [Function unknown]; Region: COG1262 28072005412 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 28072005413 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072005414 putative active site [active] 28072005415 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 28072005416 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 28072005417 metal binding site [ion binding]; metal-binding site 28072005418 dimer interface [polypeptide binding]; other site 28072005419 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005421 active site 28072005422 phosphorylation site [posttranslational modification] 28072005423 intermolecular recognition site; other site 28072005424 dimerization interface [polypeptide binding]; other site 28072005425 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 28072005426 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 28072005427 GIY-YIG motif/motif A; other site 28072005428 active site 28072005429 catalytic site [active] 28072005430 putative DNA binding site [nucleotide binding]; other site 28072005431 metal binding site [ion binding]; metal-binding site 28072005432 UvrB/uvrC motif; Region: UVR; pfam02151 28072005433 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 28072005434 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072005435 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 28072005436 cofactor binding site; other site 28072005437 DNA binding site [nucleotide binding] 28072005438 substrate interaction site [chemical binding]; other site 28072005439 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14457 28072005440 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072005441 FeS/SAM binding site; other site 28072005442 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 28072005443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072005444 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 28072005445 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 28072005446 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 28072005447 active site 28072005448 SAM binding site [chemical binding]; other site 28072005449 homodimer interface [polypeptide binding]; other site 28072005450 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 28072005451 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 28072005452 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 28072005453 active site 28072005454 (T/H)XGH motif; other site 28072005455 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 28072005456 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072005457 CARDB; Region: CARDB; pfam07705 28072005458 CARDB; Region: CARDB; pfam07705 28072005459 CARDB; Region: CARDB; pfam07705 28072005460 CARDB; Region: CARDB; pfam07705 28072005461 CARDB; Region: CARDB; pfam07705 28072005462 CARDB; Region: CARDB; pfam07705 28072005463 CARDB; Region: CARDB; pfam07705 28072005464 CARDB; Region: CARDB; pfam07705 28072005465 CARDB; Region: CARDB; pfam07705 28072005466 CARDB; Region: CARDB; pfam07705 28072005467 CARDB; Region: CARDB; pfam07705 28072005468 CARDB; Region: CARDB; pfam07705 28072005469 CARDB; Region: CARDB; pfam07705 28072005470 CARDB; Region: CARDB; pfam07705 28072005471 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 28072005472 Cna protein B-type domain; Region: Cna_B; pfam05738 28072005473 Cna protein B-type domain; Region: Cna_B; pfam05738 28072005474 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 28072005475 active site 28072005476 catalytic residues [active] 28072005477 Calx-beta domain; Region: Calx-beta; cl02522 28072005478 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 28072005479 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 28072005480 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 28072005481 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 28072005482 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 28072005483 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 28072005484 Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) [Signal transduction mechanisms]; Region: COG3476 28072005485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072005486 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072005487 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072005488 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072005489 hypothetical protein; Reviewed; Region: PRK12275 28072005490 four helix bundle protein; Region: TIGR02436 28072005491 Ribosomally synthesized peptide prototyped by Frankia Franean1_4349; Region: Frankia_peptide; pfam14407 28072005492 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 28072005493 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 28072005494 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 28072005495 substrate binding pocket [chemical binding]; other site 28072005496 substrate-Mg2+ binding site; other site 28072005497 aspartate-rich region 1; other site 28072005498 aspartate-rich region 2; other site 28072005499 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 28072005500 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 28072005501 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 28072005502 catalytic residues [active] 28072005503 RNA polymerase sigma factor; Provisional; Region: PRK12519 28072005504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072005505 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072005506 Putative phosphatase (DUF442); Region: DUF442; cl17385 28072005507 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 28072005508 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 28072005509 dimer interface [polypeptide binding]; other site 28072005510 PYR/PP interface [polypeptide binding]; other site 28072005511 TPP binding site [chemical binding]; other site 28072005512 substrate binding site [chemical binding]; other site 28072005513 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 28072005514 Domain of unknown function; Region: EKR; pfam10371 28072005515 4Fe-4S binding domain; Region: Fer4_6; pfam12837 28072005516 4Fe-4S binding domain; Region: Fer4; pfam00037 28072005517 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 28072005518 TPP-binding site [chemical binding]; other site 28072005519 dimer interface [polypeptide binding]; other site 28072005520 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 28072005521 Dihydroorotate dehydrogenase (DHOD) like proteins. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_like; cd04739 28072005522 putative active site [active] 28072005523 putative FMN binding site [chemical binding]; other site 28072005524 putative substrate binding site [chemical binding]; other site 28072005525 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 28072005526 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 28072005527 active site 28072005528 ADP/pyrophosphate binding site [chemical binding]; other site 28072005529 dimerization interface [polypeptide binding]; other site 28072005530 allosteric effector site; other site 28072005531 fructose-1,6-bisphosphate binding site; other site 28072005532 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 28072005533 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 28072005534 FOG: CBS domain [General function prediction only]; Region: COG0517 28072005535 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_7; cd04620 28072005536 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005537 PAS fold; Region: PAS_3; pfam08447 28072005538 putative active site [active] 28072005539 heme pocket [chemical binding]; other site 28072005540 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005541 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072005542 putative active site [active] 28072005543 heme pocket [chemical binding]; other site 28072005544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005545 putative active site [active] 28072005546 heme pocket [chemical binding]; other site 28072005547 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072005548 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005549 putative active site [active] 28072005550 heme pocket [chemical binding]; other site 28072005551 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005552 dimer interface [polypeptide binding]; other site 28072005553 phosphorylation site [posttranslational modification] 28072005554 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005555 ATP binding site [chemical binding]; other site 28072005556 Mg2+ binding site [ion binding]; other site 28072005557 G-X-G motif; other site 28072005558 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005560 active site 28072005561 phosphorylation site [posttranslational modification] 28072005562 intermolecular recognition site; other site 28072005563 dimerization interface [polypeptide binding]; other site 28072005564 PAS domain; Region: PAS_9; pfam13426 28072005565 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072005566 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 28072005567 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 28072005568 putative switch regulator; other site 28072005569 non-specific DNA interactions [nucleotide binding]; other site 28072005570 DNA binding site [nucleotide binding] 28072005571 sequence specific DNA binding site [nucleotide binding]; other site 28072005572 putative cAMP binding site [chemical binding]; other site 28072005573 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 28072005574 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 28072005575 S-layer homology domain; Region: SLH; pfam00395 28072005576 S-layer homology domain; Region: SLH; pfam00395 28072005577 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 28072005578 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 28072005579 phosphoenolpyruvate synthase; Validated; Region: PRK06464 28072005580 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 28072005581 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 28072005582 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 28072005583 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072005584 Ligand Binding Site [chemical binding]; other site 28072005585 pyruvate kinase; Validated; Region: PRK08187 28072005586 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 28072005587 domain interfaces; other site 28072005588 active site 28072005589 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 28072005590 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 28072005591 dimer interface [polypeptide binding]; other site 28072005592 active site 28072005593 aspartate-rich active site metal binding site; other site 28072005594 allosteric magnesium binding site [ion binding]; other site 28072005595 Schiff base residues; other site 28072005596 Predicted metal-binding protein [Function unknown]; Region: COG5469 28072005597 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 28072005598 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 28072005599 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072005600 putative active site [active] 28072005601 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072005602 putative active site [active] 28072005603 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 28072005604 active site 28072005605 SAM binding site [chemical binding]; other site 28072005606 putative homodimer interface [polypeptide binding]; other site 28072005607 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 28072005608 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072005609 S-adenosylmethionine binding site [chemical binding]; other site 28072005610 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 28072005611 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 28072005612 active site 28072005613 catalytic triad [active] 28072005614 oxyanion hole [active] 28072005615 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 28072005616 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 28072005617 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 28072005618 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 28072005619 Precorrin-8X methylmutase; Region: CbiC; pfam02570 28072005620 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 28072005621 active site 28072005622 SAM binding site [chemical binding]; other site 28072005623 homodimer interface [polypeptide binding]; other site 28072005624 Uncharacterized conserved protein [Function unknown]; Region: COG1479 28072005625 Protein of unknown function DUF262; Region: DUF262; pfam03235 28072005626 Uncharacterized conserved protein [Function unknown]; Region: COG3472 28072005627 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 28072005628 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 28072005629 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 28072005630 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 28072005631 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 28072005632 active site 28072005633 SAM binding site [chemical binding]; other site 28072005634 homodimer interface [polypeptide binding]; other site 28072005635 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072005636 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072005637 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072005638 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072005639 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072005640 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 28072005641 active site 28072005642 catalytic triad [active] 28072005643 oxyanion hole [active] 28072005644 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 28072005645 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 28072005646 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 28072005647 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 28072005648 Cupin domain; Region: Cupin_2; pfam07883 28072005649 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 28072005650 Sulfate transporter family; Region: Sulfate_transp; pfam00916 28072005651 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 28072005652 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 28072005653 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072005654 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 28072005655 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 28072005656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 28072005657 biotin synthase; Region: bioB; TIGR00433 28072005658 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072005659 FeS/SAM binding site; other site 28072005660 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 28072005661 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072005662 putative active site [active] 28072005663 hypothetical protein; Reviewed; Region: PRK12275 28072005664 four helix bundle protein; Region: TIGR02436 28072005665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072005666 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072005667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072005668 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072005669 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 28072005670 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 28072005671 active site 28072005672 dimer interface [polypeptide binding]; other site 28072005673 metal binding site [ion binding]; metal-binding site 28072005674 Protein of unknown function (DUF433); Region: DUF433; cl01030 28072005675 putative acyl transferase; Provisional; Region: PRK10502 28072005676 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 28072005677 putative trimer interface [polypeptide binding]; other site 28072005678 putative active site [active] 28072005679 putative substrate binding site [chemical binding]; other site 28072005680 putative CoA binding site [chemical binding]; other site 28072005681 Uncharacterized conserved protein [Function unknown]; Region: COG1434 28072005682 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 28072005683 putative active site [active] 28072005684 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005685 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 28072005686 putative ADP-binding pocket [chemical binding]; other site 28072005687 WzyE protein; Region: WzyE; cl11643 28072005688 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005689 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072005690 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005691 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072005692 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005693 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072005694 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072005695 active site 28072005696 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072005697 putative active site [active] 28072005698 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 28072005699 trimer interface [polypeptide binding]; other site 28072005700 active site 28072005701 substrate binding site [chemical binding]; other site 28072005702 CoA binding site [chemical binding]; other site 28072005703 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072005704 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072005705 active site 28072005706 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072005707 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072005708 active site 28072005709 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072005710 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072005711 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 28072005712 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005713 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 28072005714 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072005715 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072005716 active site 28072005717 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 28072005718 FOG: CBS domain [General function prediction only]; Region: COG0517 28072005719 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 28072005720 NeuB family; Region: NeuB; pfam03102 28072005721 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 28072005722 NeuB binding interface [polypeptide binding]; other site 28072005723 putative substrate binding site [chemical binding]; other site 28072005724 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 28072005725 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 28072005726 Metal-binding active site; metal-binding site 28072005727 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 28072005728 ligand binding site; other site 28072005729 tetramer interface; other site 28072005730 Cys-rich peptide, TIGR04165 family; Region: methano_modCys 28072005731 Methyltransferase domain; Region: Methyltransf_23; pfam13489 28072005732 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072005733 S-adenosylmethionine binding site [chemical binding]; other site 28072005734 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 28072005735 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 28072005736 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 28072005737 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 28072005738 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 28072005739 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 28072005740 Walker A/P-loop; other site 28072005741 ATP binding site [chemical binding]; other site 28072005742 Q-loop/lid; other site 28072005743 ABC transporter signature motif; other site 28072005744 Walker B; other site 28072005745 D-loop; other site 28072005746 H-loop/switch region; other site 28072005747 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 28072005748 ABC-2 type transporter; Region: ABC2_membrane; cl17235 28072005749 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072005750 putative active site [active] 28072005751 Domain of unknown function DUF29; Region: DUF29; pfam01724 28072005752 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005753 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 28072005754 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 28072005755 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 28072005756 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 28072005757 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 28072005758 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 28072005759 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072005760 S-adenosylmethionine binding site [chemical binding]; other site 28072005761 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072005762 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 28072005763 putative metal binding site; other site 28072005764 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 28072005765 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 28072005766 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 28072005767 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 28072005768 RNA binding site [nucleotide binding]; other site 28072005769 Predicted membrane protein [Function unknown]; Region: COG1950 28072005770 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 28072005771 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 28072005772 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 28072005773 GatB domain; Region: GatB_Yqey; pfam02637 28072005774 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005776 active site 28072005777 phosphorylation site [posttranslational modification] 28072005778 intermolecular recognition site; other site 28072005779 dimerization interface [polypeptide binding]; other site 28072005780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072005781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005782 ATP binding site [chemical binding]; other site 28072005783 Mg2+ binding site [ion binding]; other site 28072005784 G-X-G motif; other site 28072005785 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072005786 dimerization interface [polypeptide binding]; other site 28072005787 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005788 dimer interface [polypeptide binding]; other site 28072005789 phosphorylation site [posttranslational modification] 28072005790 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005791 ATP binding site [chemical binding]; other site 28072005792 Mg2+ binding site [ion binding]; other site 28072005793 G-X-G motif; other site 28072005794 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005796 active site 28072005797 phosphorylation site [posttranslational modification] 28072005798 intermolecular recognition site; other site 28072005799 dimerization interface [polypeptide binding]; other site 28072005800 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072005801 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072005802 Walker A/P-loop; other site 28072005803 ATP binding site [chemical binding]; other site 28072005804 Q-loop/lid; other site 28072005805 ABC transporter signature motif; other site 28072005806 Walker B; other site 28072005807 D-loop; other site 28072005808 H-loop/switch region; other site 28072005809 DevC protein; Region: devC; TIGR01185 28072005810 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072005811 FtsX-like permease family; Region: FtsX; pfam02687 28072005812 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072005813 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072005814 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072005815 Predicted transcriptional regulators [Transcription]; Region: COG1695 28072005816 Transcriptional regulator PadR-like family; Region: PadR; cl17335 28072005817 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 28072005818 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072005819 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 28072005820 putative ADP-binding pocket [chemical binding]; other site 28072005821 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 28072005822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072005823 dimer interface [polypeptide binding]; other site 28072005824 conserved gate region; other site 28072005825 putative PBP binding loops; other site 28072005826 ABC-ATPase subunit interface; other site 28072005827 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072005828 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072005829 active site 28072005830 ATP binding site [chemical binding]; other site 28072005831 substrate binding site [chemical binding]; other site 28072005832 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072005833 substrate binding site [chemical binding]; other site 28072005834 activation loop (A-loop); other site 28072005835 activation loop (A-loop); other site 28072005836 Uncharacterized conserved protein [Function unknown]; Region: COG1262 28072005837 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 28072005838 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 28072005839 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072005840 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072005841 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072005842 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072005843 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 28072005844 nickel binding site [ion binding]; other site 28072005845 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 28072005846 CoA binding domain; Region: CoA_binding_2; pfam13380 28072005847 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 28072005848 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 28072005849 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 28072005850 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 28072005851 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 28072005852 EamA-like transporter family; Region: EamA; pfam00892 28072005853 EamA-like transporter family; Region: EamA; pfam00892 28072005854 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 28072005855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072005856 DoxX-like family; Region: DoxX_3; pfam13781 28072005857 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072005858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005859 active site 28072005860 phosphorylation site [posttranslational modification] 28072005861 intermolecular recognition site; other site 28072005862 dimerization interface [polypeptide binding]; other site 28072005863 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072005864 DNA binding site [nucleotide binding] 28072005865 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072005866 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005867 dimer interface [polypeptide binding]; other site 28072005868 phosphorylation site [posttranslational modification] 28072005869 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005870 ATP binding site [chemical binding]; other site 28072005871 Mg2+ binding site [ion binding]; other site 28072005872 G-X-G motif; other site 28072005873 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 28072005874 Electron transfer DM13; Region: DM13; pfam10517 28072005875 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072005876 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072005877 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005878 dimer interface [polypeptide binding]; other site 28072005879 phosphorylation site [posttranslational modification] 28072005880 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005881 ATP binding site [chemical binding]; other site 28072005882 Mg2+ binding site [ion binding]; other site 28072005883 G-X-G motif; other site 28072005884 Lipoxygenase; Region: Lipoxygenase; pfam00305 28072005885 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072005886 Cytochrome P450; Region: p450; cl12078 28072005887 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 28072005888 Uncharacterized conserved protein (DUF2246); Region: DUF2246; pfam10229 28072005889 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 28072005890 Uncharacterized conserved protein [Function unknown]; Region: COG4301 28072005891 Ion channel; Region: Ion_trans_2; pfam07885 28072005892 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 28072005893 TrkA-N domain; Region: TrkA_N; pfam02254 28072005894 TrkA-C domain; Region: TrkA_C; pfam02080 28072005895 acetylornithine aminotransferase; Provisional; Region: PRK02627 28072005896 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 28072005897 inhibitor-cofactor binding pocket; inhibition site 28072005898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072005899 catalytic residue [active] 28072005900 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072005901 putative active site [active] 28072005902 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 28072005903 Glycoprotease family; Region: Peptidase_M22; pfam00814 28072005904 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072005905 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072005906 active site 28072005907 ATP binding site [chemical binding]; other site 28072005908 substrate binding site [chemical binding]; other site 28072005909 activation loop (A-loop); other site 28072005910 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072005911 AAA ATPase domain; Region: AAA_16; pfam13191 28072005912 Predicted ATPase [General function prediction only]; Region: COG3899 28072005913 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072005914 GAF domain; Region: GAF; pfam01590 28072005915 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005916 dimer interface [polypeptide binding]; other site 28072005917 phosphorylation site [posttranslational modification] 28072005918 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005919 ATP binding site [chemical binding]; other site 28072005920 Mg2+ binding site [ion binding]; other site 28072005921 G-X-G motif; other site 28072005922 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072005923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005924 active site 28072005925 phosphorylation site [posttranslational modification] 28072005926 intermolecular recognition site; other site 28072005927 dimerization interface [polypeptide binding]; other site 28072005928 Response regulator receiver domain; Region: Response_reg; pfam00072 28072005929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005930 active site 28072005931 phosphorylation site [posttranslational modification] 28072005932 intermolecular recognition site; other site 28072005933 dimerization interface [polypeptide binding]; other site 28072005934 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 28072005935 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072005936 putative active site [active] 28072005937 heme pocket [chemical binding]; other site 28072005938 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005939 dimer interface [polypeptide binding]; other site 28072005940 phosphorylation site [posttranslational modification] 28072005941 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005942 ATP binding site [chemical binding]; other site 28072005943 Mg2+ binding site [ion binding]; other site 28072005944 G-X-G motif; other site 28072005945 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072005946 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005947 active site 28072005948 phosphorylation site [posttranslational modification] 28072005949 intermolecular recognition site; other site 28072005950 dimerization interface [polypeptide binding]; other site 28072005951 Hypothetical chloroplast protein Ycf34; Region: Ycf34; pfam10718 28072005952 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 28072005953 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 28072005954 active site 28072005955 NTP binding site [chemical binding]; other site 28072005956 metal binding triad [ion binding]; metal-binding site 28072005957 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 28072005958 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 28072005959 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072005960 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 28072005961 iron-sulfur cluster [ion binding]; other site 28072005962 [2Fe-2S] cluster binding site [ion binding]; other site 28072005963 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072005964 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072005965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072005966 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 28072005967 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072005968 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072005969 Spondin_N; Region: Spond_N; pfam06468 28072005970 CHRD domain; Region: CHRD; pfam07452 28072005971 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 28072005972 magnesium chelatase, H subunit; Region: BchH; TIGR02025 28072005973 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072005974 Uncharacterized conserved protein [Function unknown]; Region: COG1432 28072005975 LabA_like proteins; Region: LabA; cd10911 28072005976 putative metal binding site [ion binding]; other site 28072005977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072005978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072005979 active site 28072005980 phosphorylation site [posttranslational modification] 28072005981 intermolecular recognition site; other site 28072005982 dimerization interface [polypeptide binding]; other site 28072005983 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072005984 DNA binding site [nucleotide binding] 28072005985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072005986 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072005987 dimerization interface [polypeptide binding]; other site 28072005988 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072005989 dimer interface [polypeptide binding]; other site 28072005990 phosphorylation site [posttranslational modification] 28072005991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072005992 ATP binding site [chemical binding]; other site 28072005993 Mg2+ binding site [ion binding]; other site 28072005994 G-X-G motif; other site 28072005995 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 28072005996 CHAT domain; Region: CHAT; cl17868 28072005997 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072005998 CHASE2 domain; Region: CHASE2; pfam05226 28072005999 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 28072006000 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 28072006001 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 28072006002 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 28072006003 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 28072006004 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 28072006005 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072006006 catalytic loop [active] 28072006007 iron binding site [ion binding]; other site 28072006008 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 28072006009 hypothetical protein; Provisional; Region: PRK07236 28072006010 salicylate hydroxylase; Provisional; Region: PRK08163 28072006011 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1848 28072006012 putative active site [active] 28072006013 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 28072006014 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 28072006015 substrate binding site [chemical binding]; other site 28072006016 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 28072006017 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 28072006018 substrate binding site [chemical binding]; other site 28072006019 ligand binding site [chemical binding]; other site 28072006020 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 28072006021 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 28072006022 GAF domain; Region: GAF; pfam01590 28072006023 Response regulator receiver domain; Region: Response_reg; pfam00072 28072006024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006025 active site 28072006026 phosphorylation site [posttranslational modification] 28072006027 intermolecular recognition site; other site 28072006028 dimerization interface [polypeptide binding]; other site 28072006029 2TM domain; Region: 2TM; pfam13239 28072006030 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072006031 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072006032 oligomeric interface; other site 28072006033 putative active site [active] 28072006034 homodimer interface [polypeptide binding]; other site 28072006035 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 28072006036 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 28072006037 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072006038 Ca2+ binding site [ion binding]; other site 28072006039 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072006040 Ca2+ binding site [ion binding]; other site 28072006041 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 28072006042 metal ion-dependent adhesion site (MIDAS); other site 28072006043 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072006044 RHS Repeat; Region: RHS_repeat; pfam05593 28072006045 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072006046 RHS Repeat; Region: RHS_repeat; pfam05593 28072006047 RHS Repeat; Region: RHS_repeat; pfam05593 28072006048 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072006049 RHS Repeat; Region: RHS_repeat; pfam05593 28072006050 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072006051 RHS Repeat; Region: RHS_repeat; cl11982 28072006052 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 28072006053 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072006054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 28072006055 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 28072006056 Transcriptional regulator [Transcription]; Region: LysR; COG0583 28072006057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 28072006058 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 28072006059 substrate binding pocket [chemical binding]; other site 28072006060 dimerization interface [polypeptide binding]; other site 28072006061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 28072006062 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 28072006063 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 28072006064 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 28072006065 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 28072006066 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 28072006067 Transcriptional activator [Transcription]; Region: ChrR; COG3806 28072006068 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 28072006069 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 28072006070 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 28072006071 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 28072006072 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 28072006073 putative C-terminal domain interface [polypeptide binding]; other site 28072006074 putative GSH binding site (G-site) [chemical binding]; other site 28072006075 putative dimer interface [polypeptide binding]; other site 28072006076 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 28072006077 putative N-terminal domain interface [polypeptide binding]; other site 28072006078 putative dimer interface [polypeptide binding]; other site 28072006079 putative substrate binding pocket (H-site) [chemical binding]; other site 28072006080 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072006081 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072006082 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 28072006083 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 28072006084 AAA ATPase domain; Region: AAA_16; pfam13191 28072006085 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072006086 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072006087 structural tetrad; other site 28072006088 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 28072006089 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 28072006090 DDE superfamily endonuclease; Region: DDE_5; cl17874 28072006091 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 28072006092 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 28072006093 TPP-binding site [chemical binding]; other site 28072006094 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 28072006095 Restriction endonuclease; Region: Mrr_cat; pfam04471 28072006096 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 28072006097 PIN domain; Region: PIN_3; cl17397 28072006098 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 28072006099 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072006100 putative active site [active] 28072006101 ketol-acid reductoisomerase; Provisional; Region: PRK05479 28072006102 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 28072006103 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 28072006104 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 28072006105 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 28072006106 FOG: CBS domain [General function prediction only]; Region: COG0517 28072006107 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_7; cd04620 28072006108 PAS fold; Region: PAS_3; pfam08447 28072006109 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006110 putative active site [active] 28072006111 heme pocket [chemical binding]; other site 28072006112 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006113 PAS fold; Region: PAS_3; pfam08447 28072006114 putative active site [active] 28072006115 heme pocket [chemical binding]; other site 28072006116 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006117 PAS fold; Region: PAS_3; pfam08447 28072006118 putative active site [active] 28072006119 heme pocket [chemical binding]; other site 28072006120 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006121 PAS domain; Region: PAS_9; pfam13426 28072006122 putative active site [active] 28072006123 heme pocket [chemical binding]; other site 28072006124 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072006125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006126 putative active site [active] 28072006127 heme pocket [chemical binding]; other site 28072006128 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 28072006129 putative active site [active] 28072006130 heme pocket [chemical binding]; other site 28072006131 PAS fold; Region: PAS_4; pfam08448 28072006132 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006133 putative active site [active] 28072006134 heme pocket [chemical binding]; other site 28072006135 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006136 PAS fold; Region: PAS_3; pfam08447 28072006137 putative active site [active] 28072006138 heme pocket [chemical binding]; other site 28072006139 PAS domain S-box; Region: sensory_box; TIGR00229 28072006140 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006141 putative active site [active] 28072006142 heme pocket [chemical binding]; other site 28072006143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 28072006144 Histidine kinase; Region: HisKA_2; pfam07568 28072006145 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072006146 ATP binding site [chemical binding]; other site 28072006147 Mg2+ binding site [ion binding]; other site 28072006148 G-X-G motif; other site 28072006149 acetyl-CoA synthetase; Provisional; Region: PRK00174 28072006150 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 28072006151 active site 28072006152 CoA binding site [chemical binding]; other site 28072006153 acyl-activating enzyme (AAE) consensus motif; other site 28072006154 AMP binding site [chemical binding]; other site 28072006155 acetate binding site [chemical binding]; other site 28072006156 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 28072006157 TPR repeat; Region: TPR_11; pfam13414 28072006158 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006159 binding surface 28072006160 TPR motif; other site 28072006161 Tetratricopeptide repeat; Region: TPR_16; pfam13432 28072006162 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 28072006163 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 28072006164 catalytic residues [active] 28072006165 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 28072006166 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 28072006167 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 28072006168 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 28072006169 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 28072006170 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 28072006171 substrate binding pocket [chemical binding]; other site 28072006172 membrane-bound complex binding site; other site 28072006173 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 28072006174 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072006175 dimerization interface [polypeptide binding]; other site 28072006176 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072006177 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072006178 active site 28072006179 ATP binding site [chemical binding]; other site 28072006180 substrate binding site [chemical binding]; other site 28072006181 activation loop (A-loop); other site 28072006182 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 28072006183 MltA specific insert domain; Region: MltA; pfam03562 28072006184 3D domain; Region: 3D; pfam06725 28072006185 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 28072006186 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072006187 oligomeric interface; other site 28072006188 putative active site [active] 28072006189 homodimer interface [polypeptide binding]; other site 28072006190 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 28072006191 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 28072006192 CheB methylesterase; Region: CheB_methylest; pfam01339 28072006193 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 28072006194 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 28072006195 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 28072006196 PAS domain; Region: PAS_10; pfam13596 28072006197 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072006198 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072006199 dimer interface [polypeptide binding]; other site 28072006200 phosphorylation site [posttranslational modification] 28072006201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072006202 ATP binding site [chemical binding]; other site 28072006203 Mg2+ binding site [ion binding]; other site 28072006204 G-X-G motif; other site 28072006205 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072006206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006207 active site 28072006208 phosphorylation site [posttranslational modification] 28072006209 intermolecular recognition site; other site 28072006210 dimerization interface [polypeptide binding]; other site 28072006211 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072006212 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006213 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006214 Uncharacterized conserved protein [Function unknown]; Region: COG3391 28072006215 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 28072006216 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 28072006217 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072006218 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 28072006219 light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs; Region: LPOR_like_SDR_c_like; cd09810 28072006220 putative NAD(P) binding site [chemical binding]; other site 28072006221 active site 28072006222 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072006223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072006224 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 28072006225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072006226 Coenzyme A binding pocket [chemical binding]; other site 28072006227 DNA polymerase III subunit alpha; Reviewed; Region: PRK09532 28072006228 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 28072006229 active site 28072006230 PHP Thumb interface [polypeptide binding]; other site 28072006231 metal binding site [ion binding]; metal-binding site 28072006232 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 28072006233 protein-splicing catalytic site; other site 28072006234 thioester formation/cholesterol transfer; other site 28072006235 tyrosine phenol-lyase; Provisional; Region: PRK13237 28072006236 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 28072006237 substrate binding site [chemical binding]; other site 28072006238 tetramer interface [polypeptide binding]; other site 28072006239 catalytic residue [active] 28072006240 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072006241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 28072006242 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 28072006243 Peptidase family M50; Region: Peptidase_M50; pfam02163 28072006244 active site 28072006245 putative substrate binding region [chemical binding]; other site 28072006246 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 28072006247 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 28072006248 putative active site [active] 28072006249 Protein of unknown function (DUF3110); Region: DUF3110; pfam11360 28072006250 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 28072006251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 28072006252 Family of unknown function (DUF490); Region: DUF490; pfam04357 28072006253 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006254 GAF domain; Region: GAF_3; pfam13492 28072006255 Protein of unknown function (DUF938); Region: DUF938; pfam06080 28072006256 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 28072006257 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 28072006258 active site residue [active] 28072006259 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 28072006260 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072006261 S-adenosylmethionine binding site [chemical binding]; other site 28072006262 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 28072006263 short chain dehydrogenase; Provisional; Region: PRK06701 28072006264 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 28072006265 NAD binding site [chemical binding]; other site 28072006266 metal binding site [ion binding]; metal-binding site 28072006267 active site 28072006268 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 28072006269 MgtE intracellular N domain; Region: MgtE_N; smart00924 28072006270 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 28072006271 Divalent cation transporter; Region: MgtE; pfam01769 28072006272 mercuric reductase; Validated; Region: PRK06370 28072006273 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072006274 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 28072006275 Uncharacterized conserved protein [Function unknown]; Region: COG0398 28072006276 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 28072006277 Uncharacterized conserved protein [Function unknown]; Region: COG0398 28072006278 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 28072006279 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 28072006280 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 28072006281 Transcriptional regulator [Transcription]; Region: LytR; COG1316 28072006282 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072006283 Domain of unknown function DUF20; Region: UPF0118; pfam01594 28072006284 SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational...; Region: bacterial_SERPIN; cd02049 28072006285 reactive center loop; other site 28072006286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072006287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006288 active site 28072006289 phosphorylation site [posttranslational modification] 28072006290 intermolecular recognition site; other site 28072006291 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072006292 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006293 putative active site [active] 28072006294 heme pocket [chemical binding]; other site 28072006295 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072006296 dimer interface [polypeptide binding]; other site 28072006297 phosphorylation site [posttranslational modification] 28072006298 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072006299 ATP binding site [chemical binding]; other site 28072006300 Mg2+ binding site [ion binding]; other site 28072006301 G-X-G motif; other site 28072006302 Response regulator receiver domain; Region: Response_reg; pfam00072 28072006303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006304 active site 28072006305 phosphorylation site [posttranslational modification] 28072006306 intermolecular recognition site; other site 28072006307 dimerization interface [polypeptide binding]; other site 28072006308 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 28072006309 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072006310 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072006311 structural tetrad; other site 28072006312 phosphoenolpyruvate synthase; Validated; Region: PRK06464 28072006313 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 28072006314 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 28072006315 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 28072006316 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072006317 putative active site [active] 28072006318 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 28072006319 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 28072006320 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 28072006321 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 28072006322 active site 28072006323 DNA binding site [nucleotide binding] 28072006324 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 28072006325 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 28072006326 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072006327 NAD(P)H-quinone oxidoreductase subunit M; Validated; Region: PRK07363 28072006328 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072006329 CO2 hydration protein (ChpXY); Region: ChpXY; cl10905 28072006330 tetratricopeptide repeat protein; Provisional; Region: PRK11788 28072006331 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072006332 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072006333 active site 28072006334 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072006335 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072006336 active site 28072006337 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 28072006338 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 28072006339 Walker A/P-loop; other site 28072006340 ATP binding site [chemical binding]; other site 28072006341 Q-loop/lid; other site 28072006342 ABC transporter signature motif; other site 28072006343 Walker B; other site 28072006344 D-loop; other site 28072006345 H-loop/switch region; other site 28072006346 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 28072006347 putative carbohydrate binding site [chemical binding]; other site 28072006348 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 28072006349 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 28072006350 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072006351 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072006352 active site 28072006353 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 28072006354 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 28072006355 putative ADP-binding pocket [chemical binding]; other site 28072006356 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 28072006357 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 28072006358 iron-sulfur cluster [ion binding]; other site 28072006359 [2Fe-2S] cluster binding site [ion binding]; other site 28072006360 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072006361 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006362 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006363 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072006364 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072006365 PAS domain; Region: PAS_9; pfam13426 28072006366 putative active site [active] 28072006367 heme pocket [chemical binding]; other site 28072006368 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 28072006369 cyclase homology domain; Region: CHD; cd07302 28072006370 nucleotidyl binding site; other site 28072006371 metal binding site [ion binding]; metal-binding site 28072006372 dimer interface [polypeptide binding]; other site 28072006373 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 28072006374 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 28072006375 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 28072006376 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 28072006377 Predicted membrane protein [Function unknown]; Region: COG2119 28072006378 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 28072006379 Predicted membrane protein [Function unknown]; Region: COG2119 28072006380 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 28072006381 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 28072006382 putative active site [active] 28072006383 homotetrameric interface [polypeptide binding]; other site 28072006384 metal binding site [ion binding]; metal-binding site 28072006385 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 28072006386 hypothetical protein; Provisional; Region: PRK13686 28072006387 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 28072006388 DHH family; Region: DHH; pfam01368 28072006389 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 28072006390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072006391 Helix-turn-helix domain; Region: HTH_18; pfam12833 28072006392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072006393 AMIN domain; Region: AMIN; pfam11741 28072006394 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072006395 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072006396 N-terminal plug; other site 28072006397 ligand-binding site [chemical binding]; other site 28072006398 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072006399 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072006400 siderophore binding site; other site 28072006401 Predicted metal-binding protein [Function unknown]; Region: COG5469 28072006402 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 28072006403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072006404 AMIN domain; Region: AMIN; pfam11741 28072006405 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072006406 N-terminal plug; other site 28072006407 ligand-binding site [chemical binding]; other site 28072006408 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072006409 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072006410 siderophore binding site; other site 28072006411 AMIN domain; Region: AMIN; pfam11741 28072006412 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 28072006413 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072006414 N-terminal plug; other site 28072006415 ligand-binding site [chemical binding]; other site 28072006416 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072006417 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072006418 siderophore binding site; other site 28072006419 H+ Antiporter protein; Region: 2A0121; TIGR00900 28072006420 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072006421 putative substrate translocation pore; other site 28072006422 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 28072006423 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 28072006424 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 28072006425 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 28072006426 DHH family; Region: DHH; pfam01368 28072006427 DHHA1 domain; Region: DHHA1; pfam02272 28072006428 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 28072006429 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 28072006430 active site 28072006431 catalytic residues [active] 28072006432 metal binding site [ion binding]; metal-binding site 28072006433 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 28072006434 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 28072006435 Domain of unknown function (DUF3598); Region: DUF3598; pfam12204 28072006436 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072006437 oligomeric interface; other site 28072006438 putative active site [active] 28072006439 homodimer interface [polypeptide binding]; other site 28072006440 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072006441 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072006442 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 28072006443 ribosomal protein S14; Region: rps14; CHL00074 28072006444 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 28072006445 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 28072006446 minor groove reading motif; other site 28072006447 helix-hairpin-helix signature motif; other site 28072006448 substrate binding pocket [chemical binding]; other site 28072006449 active site 28072006450 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 28072006451 RIP metalloprotease RseP; Region: TIGR00054 28072006452 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 28072006453 active site 28072006454 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 28072006455 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 28072006456 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 28072006457 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 28072006458 seryl-tRNA synthetase; Provisional; Region: PRK05431 28072006459 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 28072006460 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 28072006461 dimer interface [polypeptide binding]; other site 28072006462 active site 28072006463 motif 1; other site 28072006464 motif 2; other site 28072006465 motif 3; other site 28072006466 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 28072006467 Predicted transcriptional regulators [Transcription]; Region: COG1695 28072006468 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 28072006469 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 28072006470 Protein of unknown function (DUF3155); Region: DUF3155; pfam11352 28072006471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072006472 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072006473 dimer interface [polypeptide binding]; other site 28072006474 phosphorylation site [posttranslational modification] 28072006475 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072006476 ATP binding site [chemical binding]; other site 28072006477 Mg2+ binding site [ion binding]; other site 28072006478 G-X-G motif; other site 28072006479 S-layer homology domain; Region: SLH; pfam00395 28072006480 S-layer homology domain; Region: SLH; pfam00395 28072006481 S-layer homology domain; Region: SLH; pfam00395 28072006482 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 28072006483 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 28072006484 Walker A/P-loop; other site 28072006485 ATP binding site [chemical binding]; other site 28072006486 Q-loop/lid; other site 28072006487 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072006488 ABC transporter signature motif; other site 28072006489 Walker B; other site 28072006490 D-loop; other site 28072006491 H-loop/switch region; other site 28072006492 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006493 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072006494 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006495 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006496 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072006497 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006498 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006499 Ycf46; Provisional; Region: ycf46; CHL00195 28072006500 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072006501 Walker A motif; other site 28072006502 ATP binding site [chemical binding]; other site 28072006503 Walker B motif; other site 28072006504 arginine finger; other site 28072006505 Protein of unknown function (DUF4058); Region: DUF4058; pfam13267 28072006506 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 28072006507 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 28072006508 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 28072006509 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 28072006510 protein binding site [polypeptide binding]; other site 28072006511 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 28072006512 Catalytic dyad [active] 28072006513 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 28072006514 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 28072006515 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 28072006516 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 28072006517 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 28072006518 C-terminal domain interface [polypeptide binding]; other site 28072006519 GSH binding site (G-site) [chemical binding]; other site 28072006520 dimer interface [polypeptide binding]; other site 28072006521 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 28072006522 N-terminal domain interface [polypeptide binding]; other site 28072006523 dimer interface [polypeptide binding]; other site 28072006524 substrate binding pocket (H-site) [chemical binding]; other site 28072006525 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 28072006526 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072006527 putative active site [active] 28072006528 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 28072006529 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072006530 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 28072006531 active site 28072006532 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072006533 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072006534 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 28072006535 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 28072006536 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 28072006537 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 28072006538 Cl- selectivity filter; other site 28072006539 Cl- binding residues [ion binding]; other site 28072006540 pore gating glutamate residue; other site 28072006541 dimer interface [polypeptide binding]; other site 28072006542 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in bacteria and archaea. These ion channels are proteins with a seemingly simple task of allowing the passive flow of...; Region: CBS_pair_EriC_assoc_bac_arch; cd04593 28072006543 FOG: CBS domain [General function prediction only]; Region: COG0517 28072006544 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 28072006545 Rrf2 family protein; Region: rrf2_super; TIGR00738 28072006546 Transcriptional regulator; Region: Rrf2; cl17282 28072006547 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 28072006548 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 28072006549 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072006550 active site 28072006551 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 28072006552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072006553 Walker A/P-loop; other site 28072006554 ATP binding site [chemical binding]; other site 28072006555 HEAT repeats; Region: HEAT_2; pfam13646 28072006556 HEAT repeats; Region: HEAT_2; pfam13646 28072006557 uncharacterized cyanobacterial protein, TIGR03792 family; Region: TIGR03792 28072006558 Uncharacterized conserved protein [Function unknown]; Region: COG3937 28072006559 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 28072006560 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 28072006561 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072006562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072006563 S-adenosylmethionine binding site [chemical binding]; other site 28072006564 replicative DNA helicase; Validated; Region: PRK07773 28072006565 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 28072006566 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 28072006567 Walker A motif; other site 28072006568 ATP binding site [chemical binding]; other site 28072006569 Walker B motif; other site 28072006570 DNA binding loops [nucleotide binding] 28072006571 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 28072006572 protein-splicing catalytic site; other site 28072006573 thioester formation/cholesterol transfer; other site 28072006574 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 28072006575 protein-splicing catalytic site; other site 28072006576 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 28072006577 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 28072006578 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 28072006579 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 28072006580 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 28072006581 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072006582 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072006583 active site 28072006584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072006585 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 28072006586 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072006587 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072006588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072006589 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072006590 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072006591 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 28072006592 Walker A/P-loop; other site 28072006593 ATP binding site [chemical binding]; other site 28072006594 Q-loop/lid; other site 28072006595 ABC transporter signature motif; other site 28072006596 Walker B; other site 28072006597 D-loop; other site 28072006598 H-loop/switch region; other site 28072006599 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 28072006600 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072006601 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072006602 active site 28072006603 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 28072006604 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 28072006605 ABC1 family; Region: ABC1; cl17513 28072006606 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 28072006607 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 28072006608 Zn binding site [ion binding]; other site 28072006609 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 28072006610 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 28072006611 S-layer homology domain; Region: SLH; pfam00395 28072006612 S-layer homology domain; Region: SLH; pfam00395 28072006613 S-layer homology domain; Region: SLH; pfam00395 28072006614 S-layer homology domain; Region: SLH; pfam00395 28072006615 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 28072006616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072006617 Walker A/P-loop; other site 28072006618 ATP binding site [chemical binding]; other site 28072006619 Q-loop/lid; other site 28072006620 ABC transporter signature motif; other site 28072006621 Walker B; other site 28072006622 D-loop; other site 28072006623 H-loop/switch region; other site 28072006624 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 28072006625 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 28072006626 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 28072006627 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 28072006628 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 28072006629 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 28072006630 putative active site [active] 28072006631 putative substrate binding site [chemical binding]; other site 28072006632 putative cosubstrate binding site; other site 28072006633 catalytic site [active] 28072006634 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 28072006635 trimer interface [polypeptide binding]; other site 28072006636 dimer interface [polypeptide binding]; other site 28072006637 putative active site [active] 28072006638 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072006639 Major Facilitator Superfamily; Region: MFS_1; pfam07690 28072006640 putative substrate translocation pore; other site 28072006641 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 28072006642 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 28072006643 Putative Catalytic site; other site 28072006644 DXD motif; other site 28072006645 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 28072006646 NlpC/P60 family; Region: NLPC_P60; pfam00877 28072006647 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 28072006648 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 28072006649 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072006650 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 28072006651 protein binding site [polypeptide binding]; other site 28072006652 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 28072006653 putative homodimer interface [polypeptide binding]; other site 28072006654 putative homotetramer interface [polypeptide binding]; other site 28072006655 putative metal binding site [ion binding]; other site 28072006656 putative homodimer-homodimer interface [polypeptide binding]; other site 28072006657 putative allosteric switch controlling residues; other site 28072006658 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 28072006659 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl17426 28072006660 folate binding site [chemical binding]; other site 28072006661 NADP+ binding site [chemical binding]; other site 28072006662 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 28072006663 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 28072006664 N-acetyl-D-glucosamine binding site [chemical binding]; other site 28072006665 catalytic residue [active] 28072006666 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 28072006667 NADH(P)-binding; Region: NAD_binding_10; pfam13460 28072006668 NAD(P) binding site [chemical binding]; other site 28072006669 putative active site [active] 28072006670 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 28072006671 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 28072006672 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 28072006673 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 28072006674 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072006675 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072006676 Ankyrin repeat; Region: Ank; pfam00023 28072006677 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 28072006678 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072006679 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 28072006680 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072006681 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 28072006682 Predicted membrane protein [Function unknown]; Region: COG1950 28072006683 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006684 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006685 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072006686 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072006687 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072006688 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072006689 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072006690 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072006691 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 28072006692 ATP-grasp domain; Region: ATP-grasp; pfam02222 28072006693 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072006694 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072006695 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072006696 Response regulator receiver domain; Region: Response_reg; pfam00072 28072006697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006698 active site 28072006699 phosphorylation site [posttranslational modification] 28072006700 intermolecular recognition site; other site 28072006701 dimerization interface [polypeptide binding]; other site 28072006702 Response regulator receiver domain; Region: Response_reg; pfam00072 28072006703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006704 active site 28072006705 phosphorylation site [posttranslational modification] 28072006706 intermolecular recognition site; other site 28072006707 dimerization interface [polypeptide binding]; other site 28072006708 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 28072006709 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006710 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072006711 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006712 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072006713 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006714 GAF domain; Region: GAF; pfam01590 28072006715 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072006716 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072006717 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 28072006718 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 28072006719 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 28072006720 dimer interface [polypeptide binding]; other site 28072006721 putative CheW interface [polypeptide binding]; other site 28072006722 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072006723 putative binding surface; other site 28072006724 active site 28072006725 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 28072006726 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072006727 ATP binding site [chemical binding]; other site 28072006728 Mg2+ binding site [ion binding]; other site 28072006729 G-X-G motif; other site 28072006730 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 28072006731 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072006732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072006733 active site 28072006734 phosphorylation site [posttranslational modification] 28072006735 intermolecular recognition site; other site 28072006736 dimerization interface [polypeptide binding]; other site 28072006737 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 28072006738 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 28072006739 DNA binding residues [nucleotide binding] 28072006740 dimer interface [polypeptide binding]; other site 28072006741 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; COG2082 28072006742 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 28072006743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072006744 AAA domain; Region: AAA_21; pfam13304 28072006745 Walker A/P-loop; other site 28072006746 ATP binding site [chemical binding]; other site 28072006747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072006748 ABC transporter signature motif; other site 28072006749 Walker B; other site 28072006750 D-loop; other site 28072006751 H-loop/switch region; other site 28072006752 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 28072006753 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072006754 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072006755 Predicted membrane protein [Function unknown]; Region: COG3431 28072006756 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 28072006757 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 28072006758 active site 28072006759 catalytic residues [active] 28072006760 metal binding site [ion binding]; metal-binding site 28072006761 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 28072006762 dimerization interface [polypeptide binding]; other site 28072006763 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 28072006764 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072006765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072006766 homodimer interface [polypeptide binding]; other site 28072006767 catalytic residue [active] 28072006768 Stress-induced bacterial acidophilic repeat motif; Region: KGG; pfam10685 28072006769 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 28072006770 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 28072006771 nucleotide binding pocket [chemical binding]; other site 28072006772 K-X-D-G motif; other site 28072006773 catalytic site [active] 28072006774 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 28072006775 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 28072006776 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 28072006777 Dimer interface [polypeptide binding]; other site 28072006778 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 28072006779 heterotetramer interface [polypeptide binding]; other site 28072006780 active site pocket [active] 28072006781 cleavage site 28072006782 hypothetical protein; Validated; Region: PRK09039 28072006783 cytochrome c6; Provisional; Region: PRK13697 28072006784 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 28072006785 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072006786 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 28072006787 active site 28072006788 catalytic tetrad [active] 28072006789 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072006790 S-adenosylmethionine binding site [chemical binding]; other site 28072006791 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 28072006792 Protein of unknown function (DUF1392); Region: DUF1392; pfam07154 28072006793 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 28072006794 active site 28072006795 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 28072006796 4Fe-4S binding domain; Region: Fer4; pfam00037 28072006797 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 28072006798 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 28072006799 Uncharacterized conserved protein [Function unknown]; Region: COG5607 28072006800 Homeodomain-like domain; Region: HTH_23; pfam13384 28072006801 Winged helix-turn helix; Region: HTH_29; pfam13551 28072006802 Winged helix-turn helix; Region: HTH_33; pfam13592 28072006803 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 28072006804 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 28072006805 active site 28072006806 metal binding site [ion binding]; metal-binding site 28072006807 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072006808 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006809 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072006810 arogenate dehydrogenase; Reviewed; Region: PRK07417 28072006811 prephenate dehydrogenase; Validated; Region: PRK08507 28072006812 AAA ATPase domain; Region: AAA_16; pfam13191 28072006813 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006814 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006815 binding surface 28072006816 TPR motif; other site 28072006817 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006818 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006819 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006820 TPR motif; other site 28072006821 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006822 binding surface 28072006823 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006824 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006825 binding surface 28072006826 TPR motif; other site 28072006827 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006828 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006829 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072006830 oligomeric interface; other site 28072006831 putative active site [active] 28072006832 homodimer interface [polypeptide binding]; other site 28072006833 Protein of unknown function (DUF433); Region: DUF433; cl01030 28072006834 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 28072006835 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 28072006836 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 28072006837 dimer interface [polypeptide binding]; other site 28072006838 PYR/PP interface [polypeptide binding]; other site 28072006839 TPP binding site [chemical binding]; other site 28072006840 substrate binding site [chemical binding]; other site 28072006841 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 28072006842 Domain of unknown function; Region: EKR; smart00890 28072006843 4Fe-4S binding domain; Region: Fer4_6; pfam12837 28072006844 4Fe-4S binding domain; Region: Fer4; pfam00037 28072006845 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 28072006846 TPP-binding site [chemical binding]; other site 28072006847 dimer interface [polypeptide binding]; other site 28072006848 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 28072006849 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 28072006850 putative dimer interface [polypeptide binding]; other site 28072006851 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 28072006852 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 28072006853 Caspase domain; Region: Peptidase_C14; pfam00656 28072006854 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072006855 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072006856 structural tetrad; other site 28072006857 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072006858 structural tetrad; other site 28072006859 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072006860 structural tetrad; other site 28072006861 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072006862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072006863 Transposase; Region: HTH_Tnp_1; cl17663 28072006864 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 28072006865 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072006866 non-specific DNA binding site [nucleotide binding]; other site 28072006867 salt bridge; other site 28072006868 sequence-specific DNA binding site [nucleotide binding]; other site 28072006869 AAA ATPase domain; Region: AAA_16; pfam13191 28072006870 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072006871 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072006872 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072006873 structural tetrad; other site 28072006874 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072006875 structural tetrad; other site 28072006876 WD40 repeats; Region: WD40; smart00320 28072006877 Predicted membrane protein [Function unknown]; Region: COG2119 28072006878 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 28072006879 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 28072006880 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006881 TPR motif; other site 28072006882 binding surface 28072006883 TPR repeat; Region: TPR_11; pfam13414 28072006884 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006885 binding surface 28072006886 TPR motif; other site 28072006887 Domain of unknown function DUF39; Region: DUF39; pfam01837 28072006888 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072006889 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072006890 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 28072006891 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 28072006892 acyl-activating enzyme (AAE) consensus motif; other site 28072006893 active site 28072006894 AMP binding site [chemical binding]; other site 28072006895 CoA binding site [chemical binding]; other site 28072006896 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072006897 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072006898 active site 28072006899 ATP binding site [chemical binding]; other site 28072006900 substrate binding site [chemical binding]; other site 28072006901 activation loop (A-loop); other site 28072006902 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 28072006903 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072006904 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072006905 active site 28072006906 ATP binding site [chemical binding]; other site 28072006907 substrate binding site [chemical binding]; other site 28072006908 activation loop (A-loop); other site 28072006909 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072006910 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 28072006911 catalytic motif [active] 28072006912 Catalytic residue [active] 28072006913 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 28072006914 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 28072006915 phycocyanobilin:ferredoxin oxidoreductase; Validated; Region: PRK02816 28072006916 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 28072006917 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072006918 active site 28072006919 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 28072006920 30S subunit binding site; other site 28072006921 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 28072006922 DNA-binding site [nucleotide binding]; DNA binding site 28072006923 RNA-binding motif; other site 28072006924 DDE superfamily endonuclease; Region: DDE_5; cl17874 28072006925 ChaB; Region: ChaB; pfam06150 28072006926 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 28072006927 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 28072006928 substrate binding site [chemical binding]; other site 28072006929 hexamer interface [polypeptide binding]; other site 28072006930 metal binding site [ion binding]; metal-binding site 28072006931 Peptidase S8 family domain, uncharacterized subfamily 2; Region: Peptidases_S8_2; cd07488 28072006932 putative catalytic residues [active] 28072006933 putative active site [active] 28072006934 stage V sporulation protein K; Region: spore_V_K; TIGR02881 28072006935 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072006936 Walker A motif; other site 28072006937 ATP binding site [chemical binding]; other site 28072006938 Walker B motif; other site 28072006939 arginine finger; other site 28072006940 hypothetical protein; Reviewed; Region: PRK12275 28072006941 four helix bundle protein; Region: TIGR02436 28072006942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072006943 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072006944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072006945 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072006946 threonine dehydratase; Reviewed; Region: PRK09224 28072006947 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 28072006948 tetramer interface [polypeptide binding]; other site 28072006949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072006950 catalytic residue [active] 28072006951 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 28072006952 putative Ile/Val binding site [chemical binding]; other site 28072006953 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 28072006954 putative Ile/Val binding site [chemical binding]; other site 28072006955 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 28072006956 Predicted GTPase [General function prediction only]; Region: COG3596 28072006957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072006958 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072006959 G1 box; other site 28072006960 Walker A/P-loop; other site 28072006961 GTP/Mg2+ binding site [chemical binding]; other site 28072006962 ATP binding site [chemical binding]; other site 28072006963 G2 box; other site 28072006964 Switch I region; other site 28072006965 G3 box; other site 28072006966 Switch II region; other site 28072006967 G4 box; other site 28072006968 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 28072006969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4402 28072006970 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072006971 haemagglutination activity domain; Region: Haemagg_act; pfam05860 28072006972 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072006973 binding surface 28072006974 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006975 TPR motif; other site 28072006976 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006977 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072006978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 28072006979 Exoribonuclease R [Transcription]; Region: VacB; COG0557 28072006980 RNB domain; Region: RNB; pfam00773 28072006981 ribosomal protein S18; Region: rps18; CHL00077 28072006982 ribosomal protein L33; Region: rpl33; CHL00104 28072006983 RDD family; Region: RDD; pfam06271 28072006984 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 28072006985 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 28072006986 dimer interface [polypeptide binding]; other site 28072006987 putative functional site; other site 28072006988 putative MPT binding site; other site 28072006989 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 28072006990 16S/18S rRNA binding site [nucleotide binding]; other site 28072006991 S13e-L30e interaction site [polypeptide binding]; other site 28072006992 25S rRNA binding site [nucleotide binding]; other site 28072006993 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 28072006994 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13396 28072006995 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 28072006996 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 28072006997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072006998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072006999 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072007000 S-adenosylmethionine binding site [chemical binding]; other site 28072007001 ferrochelatase; Reviewed; Region: hemH; PRK00035 28072007002 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 28072007003 active site 28072007004 C-terminal domain interface [polypeptide binding]; other site 28072007005 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 28072007006 active site 28072007007 N-terminal domain interface [polypeptide binding]; other site 28072007008 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 28072007009 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 28072007010 adenylosuccinate lyase; Provisional; Region: PRK07380 28072007011 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 28072007012 tetramer interface [polypeptide binding]; other site 28072007013 active site 28072007014 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 28072007015 Predicted membrane protein [Function unknown]; Region: COG2323 28072007016 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 28072007017 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 28072007018 ATP-grasp domain; Region: ATP-grasp_4; cl17255 28072007019 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 28072007020 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 28072007021 homotetramer interface [polypeptide binding]; other site 28072007022 FMN binding site [chemical binding]; other site 28072007023 homodimer contacts [polypeptide binding]; other site 28072007024 putative active site [active] 28072007025 putative substrate binding site [chemical binding]; other site 28072007026 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 28072007027 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 28072007028 tandem repeat interface [polypeptide binding]; other site 28072007029 oligomer interface [polypeptide binding]; other site 28072007030 active site residues [active] 28072007031 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 28072007032 tandem repeat interface [polypeptide binding]; other site 28072007033 oligomer interface [polypeptide binding]; other site 28072007034 active site residues [active] 28072007035 light-harvesting-like protein 3; Provisional; Region: PLN00014 28072007036 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 28072007037 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 28072007038 dimerization interface [polypeptide binding]; other site 28072007039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 28072007040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 28072007041 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 28072007042 active site 28072007043 catalytic triad [active] 28072007044 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 28072007045 Uncharacterized Candidatus kuenenia aldehyde dehydrogenase AldH (CAJ73105)-like; Region: ALDH_AldH-CAJ73105; cd07131 28072007046 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 28072007047 NAD binding site [chemical binding]; other site 28072007048 catalytic residues [active] 28072007049 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 28072007050 YciI-like protein; Reviewed; Region: PRK12864 28072007051 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 28072007052 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 28072007053 putative tRNA-binding site [nucleotide binding]; other site 28072007054 B3/4 domain; Region: B3_4; pfam03483 28072007055 tRNA synthetase B5 domain; Region: B5; smart00874 28072007056 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 28072007057 dimer interface [polypeptide binding]; other site 28072007058 motif 1; other site 28072007059 motif 3; other site 28072007060 motif 2; other site 28072007061 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 28072007062 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072007063 putative active site [active] 28072007064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072007065 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 28072007066 Coenzyme A binding pocket [chemical binding]; other site 28072007067 Protein of unknown function (DUF1517); Region: DUF1517; pfam07466 28072007068 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072007069 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 28072007070 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 28072007071 thiS-thiF/thiG interaction site; other site 28072007072 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 28072007073 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 28072007074 thiamine phosphate binding site [chemical binding]; other site 28072007075 active site 28072007076 pyrophosphate binding site [ion binding]; other site 28072007077 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 28072007078 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 28072007079 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072007080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072007081 metal binding site [ion binding]; metal-binding site 28072007082 active site 28072007083 I-site; other site 28072007084 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 28072007085 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 28072007086 motif 1; other site 28072007087 active site 28072007088 motif 2; other site 28072007089 motif 3; other site 28072007090 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 28072007091 Homeodomain-like domain; Region: HTH_23; pfam13384 28072007092 Winged helix-turn helix; Region: HTH_29; pfam13551 28072007093 Homeodomain-like domain; Region: HTH_32; pfam13565 28072007094 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072007095 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 28072007096 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 28072007097 HIGH motif; other site 28072007098 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 28072007099 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 28072007100 active site 28072007101 KMSKS motif; other site 28072007102 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 28072007103 tRNA binding surface [nucleotide binding]; other site 28072007104 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 28072007105 putative active site pocket [active] 28072007106 dimerization interface [polypeptide binding]; other site 28072007107 putative catalytic residue [active] 28072007108 Putative zinc-finger; Region: zf-HC2; pfam13490 28072007109 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 28072007110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072007111 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072007112 DNA binding residues [nucleotide binding] 28072007113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 28072007114 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 28072007115 Late competence development protein ComFB; Region: ComFB; pfam10719 28072007116 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072007117 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072007118 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 28072007119 dimer interface [polypeptide binding]; other site 28072007120 catalytic triad [active] 28072007121 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 28072007122 putative active site [active] 28072007123 putative catalytic site [active] 28072007124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072007125 Probable transposase; Region: OrfB_IS605; pfam01385 28072007126 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 28072007127 cytochrome c6; Provisional; Region: PRK13697 28072007128 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 28072007129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072007130 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 28072007131 Coenzyme A binding pocket [chemical binding]; other site 28072007132 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 28072007133 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 28072007134 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072007135 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072007136 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072007137 DNA binding residues [nucleotide binding] 28072007138 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072007139 primosomal protein N' Region: priA; TIGR00595 28072007140 ATP binding site [chemical binding]; other site 28072007141 putative Mg++ binding site [ion binding]; other site 28072007142 helicase superfamily c-terminal domain; Region: HELICc; smart00490 28072007143 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 28072007144 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 28072007145 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072007146 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072007147 potassium-transporting ATPase subunit C; Provisional; Region: PRK14003 28072007148 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 28072007149 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 28072007150 nucleotide binding site [chemical binding]; other site 28072007151 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 28072007152 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072007153 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 28072007154 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 28072007155 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 28072007156 ligand-binding site [chemical binding]; other site 28072007157 2TM domain; Region: 2TM; pfam13239 28072007158 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072007159 putative substrate translocation pore; other site 28072007160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 28072007161 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 28072007162 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072007163 dimer interface [polypeptide binding]; other site 28072007164 conserved gate region; other site 28072007165 putative PBP binding loops; other site 28072007166 ABC-ATPase subunit interface; other site 28072007167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072007168 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 28072007169 Walker A/P-loop; other site 28072007170 ATP binding site [chemical binding]; other site 28072007171 Q-loop/lid; other site 28072007172 ABC transporter signature motif; other site 28072007173 Walker B; other site 28072007174 D-loop; other site 28072007175 H-loop/switch region; other site 28072007176 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 28072007177 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 28072007178 Protein of unknown function (DUF760); Region: DUF760; pfam05542 28072007179 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 28072007180 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 28072007181 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 28072007182 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072007183 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 28072007184 active site 28072007185 metal binding site [ion binding]; metal-binding site 28072007186 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 28072007187 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 28072007188 active site 28072007189 Substrate binding site; other site 28072007190 Mg++ binding site; other site 28072007191 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 28072007192 putative CoA binding site [chemical binding]; other site 28072007193 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 28072007194 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 28072007195 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 28072007196 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 28072007197 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 28072007198 Walker A/P-loop; other site 28072007199 ATP binding site [chemical binding]; other site 28072007200 Q-loop/lid; other site 28072007201 ABC transporter signature motif; other site 28072007202 Walker B; other site 28072007203 D-loop; other site 28072007204 H-loop/switch region; other site 28072007205 TOBE domain; Region: TOBE_2; pfam08402 28072007206 hypothetical protein; Provisional; Region: PRK06185 28072007207 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 28072007208 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 28072007209 TPR repeat; Region: TPR_11; pfam13414 28072007210 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072007211 binding surface 28072007212 TPR motif; other site 28072007213 TPR repeat; Region: TPR_11; pfam13414 28072007214 TPR repeat; Region: TPR_11; pfam13414 28072007215 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072007216 binding surface 28072007217 TPR motif; other site 28072007218 TPR repeat; Region: TPR_11; pfam13414 28072007219 Tetratricopeptide repeat; Region: TPR_1; pfam00515 28072007220 Transposase; Region: HTH_Tnp_IS630; pfam01710 28072007221 Homeodomain-like domain; Region: HTH_32; pfam13565 28072007222 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072007223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072007224 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072007225 Coenzyme A binding pocket [chemical binding]; other site 28072007226 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 28072007227 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 28072007228 dimer interface [polypeptide binding]; other site 28072007229 ssDNA binding site [nucleotide binding]; other site 28072007230 tetramer (dimer of dimers) interface [polypeptide binding]; other site 28072007231 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 28072007232 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 28072007233 Walker A/P-loop; other site 28072007234 ATP binding site [chemical binding]; other site 28072007235 Q-loop/lid; other site 28072007236 ABC transporter signature motif; other site 28072007237 Walker B; other site 28072007238 D-loop; other site 28072007239 H-loop/switch region; other site 28072007240 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 28072007241 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 28072007242 Walker A/P-loop; other site 28072007243 ATP binding site [chemical binding]; other site 28072007244 Q-loop/lid; other site 28072007245 ABC transporter signature motif; other site 28072007246 Walker B; other site 28072007247 D-loop; other site 28072007248 H-loop/switch region; other site 28072007249 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 28072007250 Caspase domain; Region: Peptidase_C14; pfam00656 28072007251 AAA ATPase domain; Region: AAA_16; pfam13191 28072007252 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072007254 dimer interface [polypeptide binding]; other site 28072007255 phosphorylation site [posttranslational modification] 28072007256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007257 ATP binding site [chemical binding]; other site 28072007258 Mg2+ binding site [ion binding]; other site 28072007259 G-X-G motif; other site 28072007260 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 28072007261 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072007262 putative active site [active] 28072007263 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 28072007264 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072007265 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 28072007266 CHAT domain; Region: CHAT; cl17868 28072007267 CHASE2 domain; Region: CHASE2; pfam05226 28072007268 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072007269 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 28072007270 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 28072007271 active site 28072007272 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072007273 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 28072007274 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 28072007275 muropeptide transporter; Validated; Region: ampG; cl17669 28072007276 muropeptide transporter; Reviewed; Region: ampG; PRK11902 28072007277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072007278 Coenzyme A binding pocket [chemical binding]; other site 28072007279 HEAT repeats; Region: HEAT_2; pfam13646 28072007280 HEAT repeats; Region: HEAT_2; pfam13646 28072007281 HEAT repeats; Region: HEAT_2; pfam13646 28072007282 HEAT repeat; Region: HEAT; pfam02985 28072007283 Cupin domain; Region: Cupin_2; cl17218 28072007284 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 28072007285 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 28072007286 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 28072007287 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072007288 Response regulator receiver domain; Region: Response_reg; pfam00072 28072007289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007290 active site 28072007291 phosphorylation site [posttranslational modification] 28072007292 intermolecular recognition site; other site 28072007293 dimerization interface [polypeptide binding]; other site 28072007294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072007295 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007296 phosphorylation site [posttranslational modification] 28072007297 dimer interface [polypeptide binding]; other site 28072007298 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007299 ATP binding site [chemical binding]; other site 28072007300 Mg2+ binding site [ion binding]; other site 28072007301 G-X-G motif; other site 28072007302 Response regulator receiver domain; Region: Response_reg; pfam00072 28072007303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007304 active site 28072007305 phosphorylation site [posttranslational modification] 28072007306 intermolecular recognition site; other site 28072007307 dimerization interface [polypeptide binding]; other site 28072007308 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 28072007309 FOG: CBS domain [General function prediction only]; Region: COG0517 28072007310 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 28072007311 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072007312 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007313 putative active site [active] 28072007314 heme pocket [chemical binding]; other site 28072007315 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007316 putative active site [active] 28072007317 heme pocket [chemical binding]; other site 28072007318 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072007319 GAF domain; Region: GAF; pfam01590 28072007320 PAS domain S-box; Region: sensory_box; TIGR00229 28072007321 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007322 putative active site [active] 28072007323 heme pocket [chemical binding]; other site 28072007324 PAS fold; Region: PAS_4; pfam08448 28072007325 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007326 putative active site [active] 28072007327 heme pocket [chemical binding]; other site 28072007328 PAS domain S-box; Region: sensory_box; TIGR00229 28072007329 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007330 putative active site [active] 28072007331 heme pocket [chemical binding]; other site 28072007332 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007333 PAS domain; Region: PAS_9; pfam13426 28072007334 putative active site [active] 28072007335 heme pocket [chemical binding]; other site 28072007336 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007337 PAS fold; Region: PAS_3; pfam08447 28072007338 putative active site [active] 28072007339 heme pocket [chemical binding]; other site 28072007340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072007341 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007342 dimer interface [polypeptide binding]; other site 28072007343 phosphorylation site [posttranslational modification] 28072007344 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007345 ATP binding site [chemical binding]; other site 28072007346 Mg2+ binding site [ion binding]; other site 28072007347 G-X-G motif; other site 28072007348 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072007349 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 28072007350 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 28072007351 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 28072007352 FeS/SAM binding site; other site 28072007353 Protein of unknown function (DUF512); Region: DUF512; pfam04459 28072007354 Bacitracin resistance protein BacA; Region: BacA; pfam02673 28072007355 Protein of unknown function (DUF3120); Region: DUF3120; pfam11318 28072007356 Photosystem II 12 kDa extrinsic protein (PsbU); Region: PsbU; pfam06514 28072007357 L-aspartate oxidase; Provisional; Region: PRK07395 28072007358 L-aspartate oxidase; Provisional; Region: PRK06175 28072007359 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 28072007360 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072007361 CHASE2 domain; Region: CHASE2; pfam05226 28072007362 PAS domain S-box; Region: sensory_box; TIGR00229 28072007363 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007364 putative active site [active] 28072007365 heme pocket [chemical binding]; other site 28072007366 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072007367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072007368 metal binding site [ion binding]; metal-binding site 28072007369 active site 28072007370 I-site; other site 28072007371 Vitamin K epoxide reductase family in bacteria and plants; Region: VKOR_1; cd12916 28072007372 putative active site [active] 28072007373 substrate binding site [chemical binding]; other site 28072007374 redox center [active] 28072007375 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 28072007376 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cd04722 28072007377 phosphate binding site [ion binding]; other site 28072007378 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 28072007379 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 28072007380 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072007381 FeS/SAM binding site; other site 28072007382 TRAM domain; Region: TRAM; cl01282 28072007383 helicase 45; Provisional; Region: PTZ00424 28072007384 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 28072007385 ATP binding site [chemical binding]; other site 28072007386 Mg++ binding site [ion binding]; other site 28072007387 motif III; other site 28072007388 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072007389 nucleotide binding region [chemical binding]; other site 28072007390 ATP-binding site [chemical binding]; other site 28072007391 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072007392 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 28072007393 active site 28072007394 catalytic tetrad [active] 28072007395 PUCC protein; Region: PUCC; pfam03209 28072007396 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 28072007397 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 28072007398 active site 28072007399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 28072007400 Homeodomain-like domain; Region: HTH_32; pfam13565 28072007401 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072007402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072007403 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 28072007404 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 28072007405 putative NAD(P) binding site [chemical binding]; other site 28072007406 catalytic Zn binding site [ion binding]; other site 28072007407 structural Zn binding site [ion binding]; other site 28072007408 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 28072007409 UbiA prenyltransferase family; Region: UbiA; pfam01040 28072007410 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 28072007411 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 28072007412 Switch I; other site 28072007413 UL35; Provisional; Region: PHA03250 28072007414 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 28072007415 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072007416 putative active site [active] 28072007417 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072007418 putative active site [active] 28072007419 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 28072007420 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 28072007421 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 28072007422 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 28072007423 Walker A/P-loop; other site 28072007424 ATP binding site [chemical binding]; other site 28072007425 Q-loop/lid; other site 28072007426 ABC transporter signature motif; other site 28072007427 Walker B; other site 28072007428 D-loop; other site 28072007429 H-loop/switch region; other site 28072007430 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072007431 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072007432 active site 28072007433 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072007434 active site 28072007435 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072007436 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072007437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072007438 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072007439 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072007440 active site 28072007441 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 28072007442 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072007443 active site 28072007444 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 28072007445 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072007446 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 28072007447 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 28072007448 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 28072007449 NADP binding site [chemical binding]; other site 28072007450 active site 28072007451 putative substrate binding site [chemical binding]; other site 28072007452 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 28072007453 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 28072007454 substrate binding site; other site 28072007455 metal-binding site 28072007456 Oligomer interface; other site 28072007457 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 28072007458 pyruvate kinase; Provisional; Region: PRK06354 28072007459 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 28072007460 domain interfaces; other site 28072007461 active site 28072007462 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 28072007463 Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important...; Region: CrtR_beta-carotene-hydroxylase; cd03514 28072007464 Fatty acid desaturase; Region: FA_desaturase; pfam00487 28072007465 putative di-iron ligands [ion binding]; other site 28072007466 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072007467 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072007468 ligand binding site [chemical binding]; other site 28072007469 flexible hinge region; other site 28072007470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072007471 Major Facilitator Superfamily; Region: MFS_1; pfam07690 28072007472 putative substrate translocation pore; other site 28072007473 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 28072007474 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 28072007475 putative NAD(P) binding site [chemical binding]; other site 28072007476 active site 28072007477 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 28072007478 putative active site [active] 28072007479 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 28072007480 homotrimer interaction site [polypeptide binding]; other site 28072007481 active site 28072007482 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 28072007483 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 28072007484 tandem repeat interface [polypeptide binding]; other site 28072007485 oligomer interface [polypeptide binding]; other site 28072007486 active site residues [active] 28072007487 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 28072007488 Permease; Region: Permease; cl00510 28072007489 Protein of unknown function (DUF3119); Region: DUF3119; pfam11317 28072007490 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 28072007491 Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only]; Region: Uma2; COG4636 28072007492 putative active site [active] 28072007493 membrane protein; Provisional; Region: PRK14419 28072007494 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 28072007495 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 28072007496 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072007497 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 28072007498 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072007499 Protein of unknown function (DUF4090); Region: DUF4090; pfam13319 28072007500 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 28072007501 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 28072007502 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 28072007503 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 28072007504 protein I interface; other site 28072007505 D2 interface; other site 28072007506 protein T interface; other site 28072007507 chlorophyll binding site; other site 28072007508 beta carotene binding site; other site 28072007509 pheophytin binding site; other site 28072007510 manganese-stabilizing polypeptide interface; other site 28072007511 CP43 interface; other site 28072007512 protein L interface; other site 28072007513 oxygen evolving complex binding site; other site 28072007514 bromide binding site; other site 28072007515 quinone binding site; other site 28072007516 Fe binding site [ion binding]; other site 28072007517 core light harvesting interface; other site 28072007518 cytochrome b559 alpha subunit interface; other site 28072007519 cytochrome c-550 interface; other site 28072007520 protein J interface; other site 28072007521 recombination protein RecR; Reviewed; Region: recR; PRK00076 28072007522 RecR protein; Region: RecR; pfam02132 28072007523 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 28072007524 putative active site [active] 28072007525 putative metal-binding site [ion binding]; other site 28072007526 tetramer interface [polypeptide binding]; other site 28072007527 Uncharacterized conserved protein [Function unknown]; Region: COG4279 28072007528 SWIM zinc finger; Region: SWIM; pfam04434 28072007529 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072007530 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072007531 structural tetrad; other site 28072007532 Uncharacterized conserved protein [Function unknown]; Region: COG2442 28072007533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072007534 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 28072007535 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 28072007536 intersubunit interface [polypeptide binding]; other site 28072007537 active site 28072007538 zinc binding site [ion binding]; other site 28072007539 Na+ binding site [ion binding]; other site 28072007540 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 28072007541 active site 28072007542 catalytic residues [active] 28072007543 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 28072007544 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 28072007545 tetramer interface [polypeptide binding]; other site 28072007546 TPP-binding site [chemical binding]; other site 28072007547 heterodimer interface [polypeptide binding]; other site 28072007548 phosphorylation loop region [posttranslational modification] 28072007549 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072007550 HSP70 interaction site [polypeptide binding]; other site 28072007551 Protein of unknown function (DUF4101); Region: DUF4101; pfam13355 28072007552 Predicted permeases [General function prediction only]; Region: COG0679 28072007553 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 28072007554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 28072007555 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072007556 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072007557 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 28072007558 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 28072007559 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 28072007560 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 28072007561 DNA protecting protein DprA; Region: dprA; TIGR00732 28072007562 Psb28 protein; Region: Psb28; pfam03912 28072007563 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 28072007564 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 28072007565 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 28072007566 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 28072007567 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 28072007568 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 28072007569 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072007570 catalytic residue [active] 28072007571 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072007572 oligomeric interface; other site 28072007573 putative active site [active] 28072007574 homodimer interface [polypeptide binding]; other site 28072007575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007576 ATP binding site [chemical binding]; other site 28072007577 Mg2+ binding site [ion binding]; other site 28072007578 G-X-G motif; other site 28072007579 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 28072007580 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072007581 ATP binding site [chemical binding]; other site 28072007582 putative Mg++ binding site [ion binding]; other site 28072007583 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072007584 nucleotide binding region [chemical binding]; other site 28072007585 ATP-binding site [chemical binding]; other site 28072007586 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 28072007587 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072007588 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 28072007589 XisH protein; Region: XisH; pfam08814 28072007590 XisI protein; Region: XisI; pfam08869 28072007591 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 28072007592 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 28072007593 ornithine carbamoyltransferase; Provisional; Region: PRK00779 28072007594 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 28072007595 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 28072007596 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 28072007597 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 28072007598 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 28072007599 Catalytic site [active] 28072007600 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 28072007601 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072007602 ATP binding site [chemical binding]; other site 28072007603 putative Mg++ binding site [ion binding]; other site 28072007604 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072007605 nucleotide binding region [chemical binding]; other site 28072007606 ATP-binding site [chemical binding]; other site 28072007607 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_7; cd04620 28072007608 FOG: CBS domain [General function prediction only]; Region: COG0517 28072007609 FOG: CBS domain [General function prediction only]; Region: COG0517 28072007610 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 28072007611 PAS domain S-box; Region: sensory_box; TIGR00229 28072007612 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007613 putative active site [active] 28072007614 heme pocket [chemical binding]; other site 28072007615 hypothetical protein; Provisional; Region: PRK13560 28072007616 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007617 putative active site [active] 28072007618 heme pocket [chemical binding]; other site 28072007619 PAS domain; Region: PAS; smart00091 28072007620 putative active site [active] 28072007621 heme pocket [chemical binding]; other site 28072007622 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007623 putative active site [active] 28072007624 heme pocket [chemical binding]; other site 28072007625 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007626 putative active site [active] 28072007627 heme pocket [chemical binding]; other site 28072007628 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007629 dimer interface [polypeptide binding]; other site 28072007630 phosphorylation site [posttranslational modification] 28072007631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007632 ATP binding site [chemical binding]; other site 28072007633 Mg2+ binding site [ion binding]; other site 28072007634 G-X-G motif; other site 28072007635 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072007636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007637 active site 28072007638 phosphorylation site [posttranslational modification] 28072007639 intermolecular recognition site; other site 28072007640 dimerization interface [polypeptide binding]; other site 28072007641 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 28072007642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072007643 Walker A/P-loop; other site 28072007644 ATP binding site [chemical binding]; other site 28072007645 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 28072007646 primary dimer interface [polypeptide binding]; other site 28072007647 Nucleoporin complex subunit 54; Region: Nup54; pfam13874 28072007648 Photosystem I reaction centre subunit IX / PsaJ; Region: PSI_PsaJ; cl03320 28072007649 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 28072007650 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 28072007651 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072007652 active site 28072007653 DGQHR domain; Region: DGQHR; TIGR03187 28072007654 DNA-sulfur modification-associated; Region: DndB; cl17621 28072007655 hypothetical protein; Provisional; Region: PRK06850 28072007656 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 28072007657 Active Sites [active] 28072007658 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072007659 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072007660 phosphopeptide binding site; other site 28072007661 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072007662 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072007663 active site 28072007664 ATP binding site [chemical binding]; other site 28072007665 substrate binding site [chemical binding]; other site 28072007666 activation loop (A-loop); other site 28072007667 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007668 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072007669 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007670 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007671 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 28072007672 glutamate-1-semialdehyde 2,1-aminomutase; Region: PLN02482 28072007673 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 28072007674 inhibitor-cofactor binding pocket; inhibition site 28072007675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072007676 catalytic residue [active] 28072007677 Putative cation transport regulator [General function prediction only]; Region: ChaB; COG4572 28072007678 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 28072007679 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 28072007680 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 28072007681 metal binding site [ion binding]; metal-binding site 28072007682 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 28072007683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072007684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007685 active site 28072007686 phosphorylation site [posttranslational modification] 28072007687 intermolecular recognition site; other site 28072007688 dimerization interface [polypeptide binding]; other site 28072007689 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072007690 DNA binding site [nucleotide binding] 28072007691 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 28072007692 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 28072007693 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072007694 motif II; other site 28072007695 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 28072007696 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 28072007697 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 28072007698 dimer interface [polypeptide binding]; other site 28072007699 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 28072007700 active site 28072007701 Fe binding site [ion binding]; other site 28072007702 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072007703 LabA_like proteins; Region: LabA_like; cd06167 28072007704 putative metal binding site [ion binding]; other site 28072007705 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 28072007706 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 28072007707 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 28072007708 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 28072007709 Moco binding site; other site 28072007710 metal coordination site [ion binding]; other site 28072007711 bifunctional orotidine 5'-phosphate decarboxylase/orotate phosphoribosyltransferase protein; Validated; Region: PRK05500 28072007712 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 28072007713 active site 28072007714 dimer interface [polypeptide binding]; other site 28072007715 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072007716 active site 28072007717 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072007718 Domain of unknown function DUF20; Region: UPF0118; pfam01594 28072007719 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 28072007720 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007721 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072007722 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007723 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007724 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007725 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007726 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007727 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072007728 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 28072007729 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 28072007730 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 28072007731 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072007732 CHASE2 domain; Region: CHASE2; pfam05226 28072007733 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 28072007734 cyclase homology domain; Region: CHD; cd07302 28072007735 nucleotidyl binding site; other site 28072007736 metal binding site [ion binding]; metal-binding site 28072007737 dimer interface [polypeptide binding]; other site 28072007738 Response regulator receiver domain; Region: Response_reg; pfam00072 28072007739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007740 active site 28072007741 phosphorylation site [posttranslational modification] 28072007742 intermolecular recognition site; other site 28072007743 dimerization interface [polypeptide binding]; other site 28072007744 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072007745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007746 active site 28072007747 phosphorylation site [posttranslational modification] 28072007748 intermolecular recognition site; other site 28072007749 dimerization interface [polypeptide binding]; other site 28072007750 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072007751 DNA binding site [nucleotide binding] 28072007752 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072007753 putative binding surface; other site 28072007754 active site 28072007755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007756 active site 28072007757 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 28072007758 phosphorylation site [posttranslational modification] 28072007759 intermolecular recognition site; other site 28072007760 dimerization interface [polypeptide binding]; other site 28072007761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007762 active site 28072007763 phosphorylation site [posttranslational modification] 28072007764 intermolecular recognition site; other site 28072007765 dimerization interface [polypeptide binding]; other site 28072007766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072007767 metal binding site [ion binding]; metal-binding site 28072007768 active site 28072007769 I-site; other site 28072007770 circadian clock protein KaiC; Reviewed; Region: PRK09302 28072007771 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 28072007772 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 28072007773 Walker A motif; other site 28072007774 Walker A motif; other site 28072007775 ATP binding site [chemical binding]; other site 28072007776 Walker B motif; other site 28072007777 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 28072007778 Walker A motif; other site 28072007779 ATP binding site [chemical binding]; other site 28072007780 Walker B motif; other site 28072007781 Vacuolar (H+)-ATPase G subunit; Region: V-ATPase_G; cl03922 28072007782 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 28072007783 tetramer interface [polypeptide binding]; other site 28072007784 dimer interface [polypeptide binding]; other site 28072007785 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 28072007786 tetramer interface [polypeptide binding]; other site 28072007787 dimer interface [polypeptide binding]; other site 28072007788 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007789 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072007790 putative active site [active] 28072007791 heme pocket [chemical binding]; other site 28072007792 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007793 putative active site [active] 28072007794 heme pocket [chemical binding]; other site 28072007795 PAS domain S-box; Region: sensory_box; TIGR00229 28072007796 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007797 putative active site [active] 28072007798 heme pocket [chemical binding]; other site 28072007799 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007800 PAS fold; Region: PAS_3; pfam08447 28072007801 putative active site [active] 28072007802 heme pocket [chemical binding]; other site 28072007803 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072007804 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007805 putative active site [active] 28072007806 heme pocket [chemical binding]; other site 28072007807 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007808 dimer interface [polypeptide binding]; other site 28072007809 phosphorylation site [posttranslational modification] 28072007810 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007811 ATP binding site [chemical binding]; other site 28072007812 Mg2+ binding site [ion binding]; other site 28072007813 G-X-G motif; other site 28072007814 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 28072007815 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 28072007816 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072007817 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072007818 S-adenosylmethionine binding site [chemical binding]; other site 28072007819 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 28072007820 nucleotide binding site/active site [active] 28072007821 HIT family signature motif; other site 28072007822 catalytic residue [active] 28072007823 Homeodomain-like domain; Region: HTH_23; cl17451 28072007824 Winged helix-turn helix; Region: HTH_29; pfam13551 28072007825 Homeodomain-like domain; Region: HTH_32; pfam13565 28072007826 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072007827 tellurium resistance terB-like protein; Region: terB_like; cl11965 28072007828 metal binding site [ion binding]; metal-binding site 28072007829 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 28072007830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072007831 dimer interface [polypeptide binding]; other site 28072007832 conserved gate region; other site 28072007833 ABC-ATPase subunit interface; other site 28072007834 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 28072007835 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 28072007836 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 28072007837 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 28072007838 Walker A/P-loop; other site 28072007839 ATP binding site [chemical binding]; other site 28072007840 Q-loop/lid; other site 28072007841 ABC transporter signature motif; other site 28072007842 Walker B; other site 28072007843 D-loop; other site 28072007844 H-loop/switch region; other site 28072007845 S-layer homology domain; Region: SLH; pfam00395 28072007846 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 28072007847 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072007848 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072007849 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072007850 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072007851 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 28072007852 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 28072007853 NAD binding site [chemical binding]; other site 28072007854 dimerization interface [polypeptide binding]; other site 28072007855 product binding site; other site 28072007856 substrate binding site [chemical binding]; other site 28072007857 zinc binding site [ion binding]; other site 28072007858 catalytic residues [active] 28072007859 Aspartyl protease; Region: Asp_protease_2; pfam13650 28072007860 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072007861 NB-ARC domain; Region: NB-ARC; pfam00931 28072007862 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 28072007863 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007864 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072007865 binding surface 28072007866 TPR motif; other site 28072007867 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007868 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072007869 binding surface 28072007870 TPR motif; other site 28072007871 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007872 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007873 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072007874 binding surface 28072007875 TPR motif; other site 28072007876 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007877 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007878 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072007879 binding surface 28072007880 TPR motif; other site 28072007881 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072007882 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 28072007883 Protein of unknown function DUF58; Region: DUF58; pfam01882 28072007884 von Willebrand factor type A domain; Region: VWA_2; pfam13519 28072007885 Predicted membrane protein [Function unknown]; Region: COG4325 28072007886 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 28072007887 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072007888 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072007889 Uncharacterized conserved protein [Function unknown]; Region: COG4301 28072007890 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 28072007891 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 28072007892 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 28072007893 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 28072007894 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 28072007895 putative active site [active] 28072007896 putative dimer interface [polypeptide binding]; other site 28072007897 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 28072007898 MarR family; Region: MarR; pfam01047 28072007899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 28072007900 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 28072007901 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 28072007902 active site 28072007903 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 28072007904 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 28072007905 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 28072007906 ligand binding site [chemical binding]; other site 28072007907 Cache domain; Region: Cache_1; pfam02743 28072007908 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072007909 dimerization interface [polypeptide binding]; other site 28072007910 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007911 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072007912 putative active site [active] 28072007913 heme pocket [chemical binding]; other site 28072007914 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007915 putative active site [active] 28072007916 heme pocket [chemical binding]; other site 28072007917 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072007918 GAF domain; Region: GAF; pfam01590 28072007919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072007920 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007921 dimer interface [polypeptide binding]; other site 28072007922 phosphorylation site [posttranslational modification] 28072007923 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007924 ATP binding site [chemical binding]; other site 28072007925 Mg2+ binding site [ion binding]; other site 28072007926 G-X-G motif; other site 28072007927 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 28072007928 RNA binding surface [nucleotide binding]; other site 28072007929 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 28072007930 dimanganese center [ion binding]; other site 28072007931 Cupin domain; Region: Cupin_2; pfam07883 28072007932 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 28072007933 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 28072007934 NAD binding site [chemical binding]; other site 28072007935 catalytic Zn binding site [ion binding]; other site 28072007936 structural Zn binding site [ion binding]; other site 28072007937 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 28072007938 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 28072007939 NAD binding site [chemical binding]; other site 28072007940 catalytic Zn binding site [ion binding]; other site 28072007941 structural Zn binding site [ion binding]; other site 28072007942 Predicted integral membrane protein [Function unknown]; Region: COG5637 28072007943 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 28072007944 putative hydrophobic ligand binding site [chemical binding]; other site 28072007945 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 28072007946 intracellular protease, PfpI family; Region: PfpI; TIGR01382 28072007947 proposed catalytic triad [active] 28072007948 conserved cys residue [active] 28072007949 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 28072007950 dinuclear metal binding motif [ion binding]; other site 28072007951 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 28072007952 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072007953 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072007954 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072007955 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072007956 putative active site [active] 28072007957 heme pocket [chemical binding]; other site 28072007958 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072007959 dimer interface [polypeptide binding]; other site 28072007960 phosphorylation site [posttranslational modification] 28072007961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072007962 ATP binding site [chemical binding]; other site 28072007963 Mg2+ binding site [ion binding]; other site 28072007964 G-X-G motif; other site 28072007965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072007966 Response regulator receiver domain; Region: Response_reg; pfam00072 28072007967 active site 28072007968 phosphorylation site [posttranslational modification] 28072007969 intermolecular recognition site; other site 28072007970 dimerization interface [polypeptide binding]; other site 28072007971 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 28072007972 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 28072007973 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 28072007974 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 28072007975 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072007976 catalytic residue [active] 28072007977 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 28072007978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072007979 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 28072007980 Predicted membrane protein [Function unknown]; Region: COG3431 28072007981 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 28072007982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072007983 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 28072007984 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 28072007985 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 28072007986 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 28072007987 DNA-binding site [nucleotide binding]; DNA binding site 28072007988 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072007989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072007990 homodimer interface [polypeptide binding]; other site 28072007991 catalytic residue [active] 28072007992 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 28072007993 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 28072007994 Transposase IS200 like; Region: Y1_Tnp; pfam01797 28072007995 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072007996 non-specific DNA binding site [nucleotide binding]; other site 28072007997 salt bridge; other site 28072007998 sequence-specific DNA binding site [nucleotide binding]; other site 28072007999 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072008000 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 28072008001 Probable transposase; Region: OrfB_IS605; pfam01385 28072008002 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072008003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072008004 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 28072008005 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 28072008006 Coenzyme A binding pocket [chemical binding]; other site 28072008007 S-layer homology domain; Region: SLH; pfam00395 28072008008 S-layer homology domain; Region: SLH; pfam00395 28072008009 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 28072008010 Fasciclin domain; Region: Fasciclin; pfam02469 28072008011 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 28072008012 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072008013 Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic...; Region: Rieske_RO_Alpha_PaO; cd03480 28072008014 Pheophorbide a oxygenase; Region: PaO; pfam08417 28072008015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 28072008016 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072008017 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 28072008018 inhibitor binding site; inhibition site 28072008019 catalytic motif [active] 28072008020 Catalytic residue [active] 28072008021 Active site flap [active] 28072008022 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 28072008023 active site 28072008024 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 28072008025 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072008026 active site 28072008027 metal binding site [ion binding]; metal-binding site 28072008028 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 28072008029 Predicted membrane protein [Function unknown]; Region: COG1808 28072008030 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 28072008031 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072008032 non-specific DNA binding site [nucleotide binding]; other site 28072008033 salt bridge; other site 28072008034 sequence-specific DNA binding site [nucleotide binding]; other site 28072008035 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 28072008036 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 28072008037 NB-ARC domain; Region: NB-ARC; pfam00931 28072008038 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008039 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008040 Tetratricopeptide repeat; Region: TPR_10; pfam13374 28072008041 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008042 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008043 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008044 binding surface 28072008045 TPR motif; other site 28072008046 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008047 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008048 binding surface 28072008049 TPR motif; other site 28072008050 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008051 threonine synthase; Reviewed; Region: PRK06721 28072008052 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 28072008053 homodimer interface [polypeptide binding]; other site 28072008054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072008055 catalytic residue [active] 28072008056 short chain dehydrogenase; Provisional; Region: PRK07109 28072008057 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 28072008058 putative NAD(P) binding site [chemical binding]; other site 28072008059 active site 28072008060 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 28072008061 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 28072008062 active site 28072008063 metal binding site [ion binding]; metal-binding site 28072008064 DNA binding site [nucleotide binding] 28072008065 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072008066 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008067 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008068 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072008069 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072008070 active site 28072008071 ATP binding site [chemical binding]; other site 28072008072 substrate binding site [chemical binding]; other site 28072008073 activation loop (A-loop); other site 28072008074 PAS fold; Region: PAS_4; pfam08448 28072008075 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072008076 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072008077 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072008078 GAF domain; Region: GAF; pfam01590 28072008079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072008080 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072008081 dimer interface [polypeptide binding]; other site 28072008082 phosphorylation site [posttranslational modification] 28072008083 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072008084 ATP binding site [chemical binding]; other site 28072008085 G-X-G motif; other site 28072008086 ATP-grasp domain; Region: ATP-grasp_4; cl17255 28072008087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 28072008088 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 28072008089 FAD binding domain; Region: FAD_binding_4; pfam01565 28072008090 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 28072008091 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072008092 putative active site [active] 28072008093 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 28072008094 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 28072008095 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 28072008096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072008097 Mg2+ binding site [ion binding]; other site 28072008098 G-X-G motif; other site 28072008099 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 28072008100 anchoring element; other site 28072008101 dimer interface [polypeptide binding]; other site 28072008102 ATP binding site [chemical binding]; other site 28072008103 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 28072008104 active site 28072008105 putative metal-binding site [ion binding]; other site 28072008106 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 28072008107 RNA polymerase sigma factor RpoD; Validated; Region: PRK07406 28072008108 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 28072008109 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072008110 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072008111 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072008112 DNA binding residues [nucleotide binding] 28072008113 light-harvesting-like protein 3; Provisional; Region: PLN00014 28072008114 DNA gyrase subunit A; Validated; Region: PRK05560 28072008115 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 28072008116 CAP-like domain; other site 28072008117 active site 28072008118 primary dimer interface [polypeptide binding]; other site 28072008119 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072008120 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072008121 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072008122 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072008123 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072008124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008125 active site 28072008126 phosphorylation site [posttranslational modification] 28072008127 intermolecular recognition site; other site 28072008128 dimerization interface [polypeptide binding]; other site 28072008129 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 28072008130 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008131 binding surface 28072008132 TPR motif; other site 28072008133 TPR repeat; Region: TPR_11; pfam13414 28072008134 TPR repeat; Region: TPR_11; pfam13414 28072008135 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008136 binding surface 28072008137 TPR motif; other site 28072008138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 28072008139 Methyltransferase domain; Region: Methyltransf_23; pfam13489 28072008140 Predicted permease [General function prediction only]; Region: COG3329 28072008141 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072008142 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072008143 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072008144 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072008145 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 28072008146 FtsX-like permease family; Region: FtsX; pfam02687 28072008147 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072008148 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 28072008149 [2Fe-2S] cluster binding site [ion binding]; other site 28072008150 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 28072008151 hydrophobic ligand binding site; other site 28072008152 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 28072008153 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 28072008154 acetohydroxyacid synthase small subunit; Region: ilvH; CHL00100 28072008155 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 28072008156 putative valine binding site [chemical binding]; other site 28072008157 dimer interface [polypeptide binding]; other site 28072008158 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 28072008159 BON domain; Region: BON; cl02771 28072008160 hydrolase, alpha/beta fold family protein; Region: PLN02824 28072008161 translation initiation factor 3; Provisional; Region: infC; CHL00199 28072008162 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 28072008163 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 28072008164 TLC ATP/ADP transporter; Region: TLC; cl03940 28072008165 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 28072008166 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 28072008167 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072008168 active site 28072008169 metal binding site [ion binding]; metal-binding site 28072008170 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 28072008171 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 28072008172 Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) [Signal transduction mechanisms]; Region: COG3476 28072008173 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 28072008174 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072008175 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 28072008176 protein binding site [polypeptide binding]; other site 28072008177 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 28072008178 Peptidase family M50; Region: Peptidase_M50; pfam02163 28072008179 active site 28072008180 putative substrate binding region [chemical binding]; other site 28072008181 FOG: CBS domain [General function prediction only]; Region: COG0517 28072008182 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 28072008183 Predicted membrane protein [Function unknown]; Region: COG1950 28072008184 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 28072008185 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 28072008186 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 28072008187 Protein of unknown function (DUF456); Region: DUF456; cl01069 28072008188 Protein of unknown function (DUF2930); Region: DUF2930; pfam11152 28072008189 Ycf27; Reviewed; Region: orf27; CHL00148 28072008190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008191 active site 28072008192 phosphorylation site [posttranslational modification] 28072008193 intermolecular recognition site; other site 28072008194 dimerization interface [polypeptide binding]; other site 28072008195 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072008196 DNA binding site [nucleotide binding] 28072008197 DNA repair protein RadA; Provisional; Region: PRK11823 28072008198 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 28072008199 Walker A motif/ATP binding site; other site 28072008200 ATP binding site [chemical binding]; other site 28072008201 Walker B motif; other site 28072008202 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 28072008203 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072008204 putative active site [active] 28072008205 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 28072008206 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072008207 Walker A motif; other site 28072008208 ATP binding site [chemical binding]; other site 28072008209 Walker B motif; other site 28072008210 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072008211 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008212 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008213 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072008214 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008215 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072008216 putative active site [active] 28072008217 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 28072008218 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 28072008219 active site 28072008220 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072008221 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072008222 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072008223 ribosome maturation protein RimP; Reviewed; Region: PRK00092 28072008224 Sm and related proteins; Region: Sm_like; cl00259 28072008225 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 28072008226 putative oligomer interface [polypeptide binding]; other site 28072008227 putative RNA binding site [nucleotide binding]; other site 28072008228 NusA N-terminal domain; Region: NusA_N; pfam08529 28072008229 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 28072008230 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 28072008231 RNA binding site [nucleotide binding]; other site 28072008232 homodimer interface [polypeptide binding]; other site 28072008233 NusA-like KH domain; Region: KH_5; pfam13184 28072008234 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 28072008235 G-X-X-G motif; other site 28072008236 Protein of unknown function (DUF448); Region: DUF448; pfam04296 28072008237 putative RNA binding cleft [nucleotide binding]; other site 28072008238 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 28072008239 cell division protein DamX; Validated; Region: PRK10905 28072008240 translation initiation factor IF-2; Region: IF-2; TIGR00487 28072008241 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 28072008242 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 28072008243 G1 box; other site 28072008244 putative GEF interaction site [polypeptide binding]; other site 28072008245 GTP/Mg2+ binding site [chemical binding]; other site 28072008246 Switch I region; other site 28072008247 G2 box; other site 28072008248 G3 box; other site 28072008249 Switch II region; other site 28072008250 G4 box; other site 28072008251 G5 box; other site 28072008252 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 28072008253 Translation-initiation factor 2; Region: IF-2; pfam11987 28072008254 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 28072008255 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 28072008256 S-layer homology domain; Region: SLH; pfam00395 28072008257 S-layer homology domain; Region: SLH; pfam00395 28072008258 Protein of unknown function (DUF3493); Region: DUF3493; pfam11998 28072008259 CpeS-like protein; Region: CpeS; pfam09367 28072008260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 28072008261 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072008262 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 28072008263 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072008264 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072008265 active site 28072008266 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 28072008267 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 28072008268 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 28072008269 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 28072008270 putative homodimer interface [polypeptide binding]; other site 28072008271 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 28072008272 heterodimer interface [polypeptide binding]; other site 28072008273 homodimer interface [polypeptide binding]; other site 28072008274 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 28072008275 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 28072008276 23S rRNA interface [nucleotide binding]; other site 28072008277 L7/L12 interface [polypeptide binding]; other site 28072008278 putative thiostrepton binding site; other site 28072008279 L25 interface [polypeptide binding]; other site 28072008280 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 28072008281 mRNA/rRNA interface [nucleotide binding]; other site 28072008282 Ribosomal protein L10 leader; IMG reference gene:2509810371; Nos7524_2802 28072008283 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 28072008284 23S rRNA interface [nucleotide binding]; other site 28072008285 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 28072008286 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 28072008287 peripheral dimer interface [polypeptide binding]; other site 28072008288 core dimer interface [polypeptide binding]; other site 28072008289 L10 interface [polypeptide binding]; other site 28072008290 L11 interface [polypeptide binding]; other site 28072008291 putative EF-Tu interaction site [polypeptide binding]; other site 28072008292 putative EF-G interaction site [polypeptide binding]; other site 28072008293 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072008294 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072008295 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 28072008296 Ycf39; Provisional; Region: ycf39; CHL00194 28072008297 NAD(P) binding site [chemical binding]; other site 28072008298 putative active site [active] 28072008299 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 28072008300 putative catalytic site [active] 28072008301 putative phosphate binding site [ion binding]; other site 28072008302 active site 28072008303 metal binding site A [ion binding]; metal-binding site 28072008304 DNA binding site [nucleotide binding] 28072008305 putative AP binding site [nucleotide binding]; other site 28072008306 putative metal binding site B [ion binding]; other site 28072008307 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 28072008308 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 28072008309 NAD(P) binding site [chemical binding]; other site 28072008310 HEAT repeats; Region: HEAT_2; pfam13646 28072008311 HEAT repeats; Region: HEAT_2; pfam13646 28072008312 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 28072008313 HEAT repeats; Region: HEAT_2; pfam13646 28072008314 protein binding surface [polypeptide binding]; other site 28072008315 HEAT repeats; Region: HEAT_2; pfam13646 28072008316 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 28072008317 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072008318 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072008319 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072008320 ligand binding site [chemical binding]; other site 28072008321 flexible hinge region; other site 28072008322 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 28072008323 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 28072008324 4Fe-4S binding domain; Region: Fer4_5; pfam12801 28072008325 Fic family protein [Function unknown]; Region: COG3177 28072008326 Fic/DOC family; Region: Fic; pfam02661 28072008327 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 28072008328 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072008329 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072008330 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072008331 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 28072008332 Phosphotransferase enzyme family; Region: APH; pfam01636 28072008333 Protein of unknown function (DUF327); Region: DUF327; cl00753 28072008334 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 28072008335 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 28072008336 dimerization interface [polypeptide binding]; other site 28072008337 domain crossover interface; other site 28072008338 redox-dependent activation switch; other site 28072008339 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072008340 Ligand Binding Site [chemical binding]; other site 28072008341 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 28072008342 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 28072008343 NAD binding site [chemical binding]; other site 28072008344 dimerization interface [polypeptide binding]; other site 28072008345 product binding site; other site 28072008346 substrate binding site [chemical binding]; other site 28072008347 zinc binding site [ion binding]; other site 28072008348 catalytic residues [active] 28072008349 ribosomal protein S20; Region: rps20; CHL00102 28072008350 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 28072008351 active site 28072008352 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 28072008353 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 28072008354 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 28072008355 RPB1 interaction site [polypeptide binding]; other site 28072008356 RPB10 interaction site [polypeptide binding]; other site 28072008357 RPB11 interaction site [polypeptide binding]; other site 28072008358 RPB3 interaction site [polypeptide binding]; other site 28072008359 RPB12 interaction site [polypeptide binding]; other site 28072008360 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 28072008361 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 28072008362 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 28072008363 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 28072008364 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 28072008365 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 28072008366 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 28072008367 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 28072008368 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 28072008369 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 28072008370 DNA binding site [nucleotide binding] 28072008371 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 28072008372 Uncharacterized conserved protein [Function unknown]; Region: COG1543 28072008373 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 28072008374 active site 28072008375 substrate binding site [chemical binding]; other site 28072008376 catalytic site [active] 28072008377 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 28072008378 YxiJ-like protein; Region: YxiJ; pfam14176 28072008379 apocytochrome f; Reviewed; Region: PRK02693 28072008380 cytochrome f; Region: petA; CHL00037 28072008381 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 28072008382 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 28072008383 Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium; Region: Rieske_cytochrome_b6f; cd03471 28072008384 cytochrome b subunit interaction site [polypeptide binding]; other site 28072008385 [2Fe-2S] cluster binding site [ion binding]; other site 28072008386 Protein of unknown function (DUF3067); Region: DUF3067; pfam11267 28072008387 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 28072008388 dimer interface [polypeptide binding]; other site 28072008389 putative tRNA-binding site [nucleotide binding]; other site 28072008390 Sec-independent translocase component C; Provisional; Region: tatC; CHL00182 28072008391 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 28072008392 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072008393 Walker A motif; other site 28072008394 ATP binding site [chemical binding]; other site 28072008395 Walker B motif; other site 28072008396 arginine finger; other site 28072008397 WD domain, G-beta repeat; Region: WD40; pfam00400 28072008398 WD40 repeats; Region: WD40; smart00320 28072008399 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072008400 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072008401 structural tetrad; other site 28072008402 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072008403 structural tetrad; other site 28072008404 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 28072008405 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 28072008406 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 28072008407 generic binding surface I; other site 28072008408 generic binding surface II; other site 28072008409 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 28072008410 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 28072008411 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 28072008412 Helix-turn-helix domain; Region: HTH_25; pfam13413 28072008413 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 28072008414 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072008415 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 28072008416 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072008417 Helix-turn-helix domain; Region: HTH_25; pfam13413 28072008418 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 28072008419 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 28072008420 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 28072008421 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 28072008422 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 28072008423 catalytic triad [active] 28072008424 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 28072008425 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 28072008426 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072008427 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 28072008428 PQQ-like domain; Region: PQQ_2; pfam13360 28072008429 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072008430 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072008431 hypothetical protein; Reviewed; Region: PRK12275 28072008432 four helix bundle protein; Region: TIGR02436 28072008433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072008434 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072008435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072008436 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072008437 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 28072008438 putative ADP-binding pocket [chemical binding]; other site 28072008439 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072008440 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 28072008441 dimer interface [polypeptide binding]; other site 28072008442 catalytic triad [active] 28072008443 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 28072008444 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 28072008445 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 28072008446 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072008447 putative active site [active] 28072008448 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 28072008449 DNA photolyase; Region: DNA_photolyase; pfam00875 28072008450 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 28072008451 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 28072008452 active site 28072008453 zinc binding site [ion binding]; other site 28072008454 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 28072008455 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 28072008456 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072008457 PIN domain; Region: PIN_3; pfam13470 28072008458 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 28072008459 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 28072008460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072008461 active site 28072008462 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 28072008463 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 28072008464 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072008465 Cytochrome P450; Region: p450; pfam00067 28072008466 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 28072008467 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072008468 active site 28072008469 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072008470 GAF domain; Region: GAF; pfam01590 28072008471 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072008472 GAF domain; Region: GAF; pfam01590 28072008473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072008474 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072008475 dimer interface [polypeptide binding]; other site 28072008476 phosphorylation site [posttranslational modification] 28072008477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072008478 ATP binding site [chemical binding]; other site 28072008479 Mg2+ binding site [ion binding]; other site 28072008480 G-X-G motif; other site 28072008481 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 28072008482 putative hydrophobic ligand binding site [chemical binding]; other site 28072008483 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 28072008484 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 28072008485 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 28072008486 TrkA-N domain; Region: TrkA_N; pfam02254 28072008487 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 28072008488 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 28072008489 intrachain domain interface; other site 28072008490 heme bH binding site [chemical binding]; other site 28072008491 heme bL binding site [chemical binding]; other site 28072008492 interchain domain interface [polypeptide binding]; other site 28072008493 Qo binding site; other site 28072008494 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 28072008495 PGAP1-like protein; Region: PGAP1; pfam07819 28072008496 Cytochrome c; Region: Cytochrom_C; cl11414 28072008497 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 28072008498 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 28072008499 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 28072008500 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072008501 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072008502 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072008503 sucrose synthase; Region: sucr_synth; TIGR02470 28072008504 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 28072008505 putative ADP-binding pocket [chemical binding]; other site 28072008506 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 28072008507 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 28072008508 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 28072008509 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 28072008510 beta-phosphoglucomutase; Region: bPGM; TIGR01990 28072008511 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 28072008512 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072008513 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 28072008514 RDD family; Region: RDD; pfam06271 28072008515 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072008516 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008517 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072008518 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008519 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072008520 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072008521 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072008522 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072008523 Hexamer interface [polypeptide binding]; other site 28072008524 Hexagonal pore residue; other site 28072008525 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072008526 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072008527 Hexamer interface [polypeptide binding]; other site 28072008528 Hexagonal pore residue; other site 28072008529 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072008530 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 28072008531 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 28072008532 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 28072008533 putative dimer interface [polypeptide binding]; other site 28072008534 putative anticodon binding site; other site 28072008535 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 28072008536 homodimer interface [polypeptide binding]; other site 28072008537 motif 1; other site 28072008538 motif 2; other site 28072008539 active site 28072008540 motif 3; other site 28072008541 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 28072008542 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 28072008543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 28072008544 TRAM domain; Region: TRAM; pfam01938 28072008545 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 28072008546 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072008547 S-adenosylmethionine binding site [chemical binding]; other site 28072008548 Phycobilisome protein; Region: Phycobilisome; cl08227 28072008549 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 28072008550 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 28072008551 dimerization interface [polypeptide binding]; other site 28072008552 ATP binding site [chemical binding]; other site 28072008553 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 28072008554 dimerization interface [polypeptide binding]; other site 28072008555 ATP binding site [chemical binding]; other site 28072008556 amidophosphoribosyltransferase; Provisional; Region: PRK07349 28072008557 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 28072008558 active site 28072008559 tetramer interface [polypeptide binding]; other site 28072008560 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072008561 active site 28072008562 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 28072008563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072008564 dimer interface [polypeptide binding]; other site 28072008565 conserved gate region; other site 28072008566 ABC-ATPase subunit interface; other site 28072008567 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072008568 active site 28072008569 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 28072008570 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 28072008571 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072008572 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072008573 phosphopeptide binding site; other site 28072008574 Transglycosylase; Region: Transgly; pfam00912 28072008575 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 28072008576 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 28072008577 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 28072008578 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 28072008579 lipoprotein signal peptidase; Provisional; Region: PRK14787 28072008580 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 28072008581 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 28072008582 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 28072008583 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072008584 dimer interface [polypeptide binding]; other site 28072008585 conserved gate region; other site 28072008586 putative PBP binding loops; other site 28072008587 ABC-ATPase subunit interface; other site 28072008588 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 28072008589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072008590 dimer interface [polypeptide binding]; other site 28072008591 conserved gate region; other site 28072008592 putative PBP binding loops; other site 28072008593 ABC-ATPase subunit interface; other site 28072008594 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 28072008595 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 28072008596 Walker A/P-loop; other site 28072008597 ATP binding site [chemical binding]; other site 28072008598 Q-loop/lid; other site 28072008599 ABC transporter signature motif; other site 28072008600 Walker B; other site 28072008601 D-loop; other site 28072008602 H-loop/switch region; other site 28072008603 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 28072008604 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072008605 dimer interface [polypeptide binding]; other site 28072008606 conserved gate region; other site 28072008607 putative PBP binding loops; other site 28072008608 ABC-ATPase subunit interface; other site 28072008609 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 28072008610 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 28072008611 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 28072008612 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 28072008613 Walker A/P-loop; other site 28072008614 ATP binding site [chemical binding]; other site 28072008615 Q-loop/lid; other site 28072008616 ABC transporter signature motif; other site 28072008617 Walker B; other site 28072008618 D-loop; other site 28072008619 H-loop/switch region; other site 28072008620 TOBE domain; Region: TOBE_2; pfam08402 28072008621 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 28072008622 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 28072008623 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 28072008624 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 28072008625 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 28072008626 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 28072008627 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 28072008628 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 28072008629 CheW-like domain; Region: CheW; pfam01584 28072008630 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 28072008631 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 28072008632 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008633 binding surface 28072008634 TPR motif; other site 28072008635 CHASE3 domain; Region: CHASE3; pfam05227 28072008636 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 28072008637 HAMP domain; Region: HAMP; pfam00672 28072008638 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 28072008639 dimer interface [polypeptide binding]; other site 28072008640 putative CheW interface [polypeptide binding]; other site 28072008641 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 28072008642 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072008643 putative binding surface; other site 28072008644 active site 28072008645 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 28072008646 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072008647 ATP binding site [chemical binding]; other site 28072008648 Mg2+ binding site [ion binding]; other site 28072008649 G-X-G motif; other site 28072008650 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 28072008651 Response regulator receiver domain; Region: Response_reg; pfam00072 28072008652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008653 active site 28072008654 phosphorylation site [posttranslational modification] 28072008655 intermolecular recognition site; other site 28072008656 dimerization interface [polypeptide binding]; other site 28072008657 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 28072008658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008659 active site 28072008660 phosphorylation site [posttranslational modification] 28072008661 intermolecular recognition site; other site 28072008662 dimerization interface [polypeptide binding]; other site 28072008663 CheB methylesterase; Region: CheB_methylest; pfam01339 28072008664 Response regulator receiver domain; Region: Response_reg; pfam00072 28072008665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008666 active site 28072008667 phosphorylation site [posttranslational modification] 28072008668 intermolecular recognition site; other site 28072008669 dimerization interface [polypeptide binding]; other site 28072008670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072008671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072008672 ATP binding site [chemical binding]; other site 28072008673 Mg2+ binding site [ion binding]; other site 28072008674 G-X-G motif; other site 28072008675 Cytochrome P450; Region: p450; pfam00067 28072008676 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072008677 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072008678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008679 active site 28072008680 phosphorylation site [posttranslational modification] 28072008681 intermolecular recognition site; other site 28072008682 dimerization interface [polypeptide binding]; other site 28072008683 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072008684 DNA binding residues [nucleotide binding] 28072008685 dimerization interface [polypeptide binding]; other site 28072008686 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 28072008687 oligomerisation interface [polypeptide binding]; other site 28072008688 mobile loop; other site 28072008689 roof hairpin; other site 28072008690 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 28072008691 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 28072008692 ring oligomerisation interface [polypeptide binding]; other site 28072008693 ATP/Mg binding site [chemical binding]; other site 28072008694 stacking interactions; other site 28072008695 hinge regions; other site 28072008696 Cobalamin biosynthesis protein CobN and related Mg-chelatases [Coenzyme metabolism]; Region: CobN; COG1429 28072008697 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072008698 oligomeric interface; other site 28072008699 putative active site [active] 28072008700 homodimer interface [polypeptide binding]; other site 28072008701 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072008702 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072008703 excinuclease ABC subunit B; Provisional; Region: PRK05298 28072008704 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072008705 ATP binding site [chemical binding]; other site 28072008706 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072008707 nucleotide binding region [chemical binding]; other site 28072008708 ATP-binding site [chemical binding]; other site 28072008709 Ultra-violet resistance protein B; Region: UvrB; pfam12344 28072008710 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008711 binding surface 28072008712 TPR motif; other site 28072008713 TPR repeat; Region: TPR_11; pfam13414 28072008714 TPR repeat; Region: TPR_11; pfam13414 28072008715 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008716 binding surface 28072008717 TPR motif; other site 28072008718 TPR repeat; Region: TPR_11; pfam13414 28072008719 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008720 binding surface 28072008721 TPR motif; other site 28072008722 Tetratricopeptide repeat; Region: TPR_16; pfam13432 28072008723 CTP synthetase; Validated; Region: pyrG; PRK05380 28072008724 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 28072008725 Catalytic site [active] 28072008726 active site 28072008727 UTP binding site [chemical binding]; other site 28072008728 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 28072008729 active site 28072008730 putative oxyanion hole; other site 28072008731 catalytic triad [active] 28072008732 Bacterial SH3 domain; Region: SH3_3; pfam08239 28072008733 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 28072008734 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 28072008735 active site 28072008736 metal binding site [ion binding]; metal-binding site 28072008737 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 28072008738 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 28072008739 active site 28072008740 metal binding site [ion binding]; metal-binding site 28072008741 XisI protein; Region: XisI; pfam08869 28072008742 XisH protein; Region: XisH; pfam08814 28072008743 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 28072008744 Amidinotransferase; Region: Amidinotransf; cl12043 28072008745 Uncharacterized conserved protein [Function unknown]; Region: COG1915 28072008746 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cd12144 28072008747 homodimer interface [polypeptide binding]; other site 28072008748 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 28072008749 Phytase; Region: Phytase; cl17685 28072008750 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 28072008751 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 28072008752 nudix motif; other site 28072008753 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072008754 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072008755 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072008756 catalytic residues [active] 28072008757 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 28072008758 Fatty acid desaturase; Region: FA_desaturase; pfam00487 28072008759 Di-iron ligands [ion binding]; other site 28072008760 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072008761 active site 28072008762 Uncharacterized conserved protein [Function unknown]; Region: COG2442 28072008763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072008764 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072008765 active site 28072008766 ATP binding site [chemical binding]; other site 28072008767 substrate binding site [chemical binding]; other site 28072008768 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 28072008769 catalytic site [active] 28072008770 putative active site [active] 28072008771 putative substrate binding site [chemical binding]; other site 28072008772 TPR repeat; Region: TPR_11; pfam13414 28072008773 TPR repeat; Region: TPR_11; pfam13414 28072008774 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008775 binding surface 28072008776 TPR motif; other site 28072008777 TPR repeat; Region: TPR_11; pfam13414 28072008778 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008779 binding surface 28072008780 TPR motif; other site 28072008781 TPR repeat; Region: TPR_11; pfam13414 28072008782 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 28072008783 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 28072008784 Na binding site [ion binding]; other site 28072008785 Predicted membrane protein [Function unknown]; Region: COG4327 28072008786 manganese transport transcriptional regulator; Provisional; Region: PRK03902 28072008787 aspartate kinase; Provisional; Region: PRK07431 28072008788 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 28072008789 putative catalytic residues [active] 28072008790 putative nucleotide binding site [chemical binding]; other site 28072008791 putative aspartate binding site [chemical binding]; other site 28072008792 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 28072008793 putative allosteric regulatory site; other site 28072008794 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 28072008795 putative allosteric regulatory residue; other site 28072008796 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 28072008797 putative allosteric regulatory site; other site 28072008798 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 28072008799 putative allosteric regulatory residue; other site 28072008800 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 28072008801 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 28072008802 Walker A/P-loop; other site 28072008803 ATP binding site [chemical binding]; other site 28072008804 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 28072008805 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 28072008806 ABC transporter signature motif; other site 28072008807 Walker B; other site 28072008808 D-loop; other site 28072008809 H-loop/switch region; other site 28072008810 PRC-barrel domain; Region: PRC; pfam05239 28072008811 PRC-barrel domain; Region: PRC; pfam05239 28072008812 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 28072008813 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 28072008814 nucleotide binding site [chemical binding]; other site 28072008815 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 28072008816 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072008817 dimer interface [polypeptide binding]; other site 28072008818 conserved gate region; other site 28072008819 ABC-ATPase subunit interface; other site 28072008820 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 28072008821 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072008822 TRX domain, novel NADPH thioredoxin reductase (NTR) family; composed of fusion proteins found only in oxygenic photosynthetic organisms containing both TRX and NTR domains. The TRX domain functions as a protein disulfide reductase via the reversible...; Region: TRX_NTR; cd02949 28072008823 catalytic residues [active] 28072008824 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 28072008825 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 28072008826 putative lipid kinase; Reviewed; Region: PRK13057 28072008827 NB-ARC domain; Region: NB-ARC; pfam00931 28072008828 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008829 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008830 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008831 binding surface 28072008832 TPR motif; other site 28072008833 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008834 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008835 binding surface 28072008836 TPR motif; other site 28072008837 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008838 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008839 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008840 binding surface 28072008841 TPR motif; other site 28072008842 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008843 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008844 binding surface 28072008845 TPR motif; other site 28072008846 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072008847 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072008848 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 28072008849 Walker A/P-loop; other site 28072008850 ATP binding site [chemical binding]; other site 28072008851 Q-loop/lid; other site 28072008852 ABC transporter signature motif; other site 28072008853 Walker B; other site 28072008854 D-loop; other site 28072008855 H-loop/switch region; other site 28072008856 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072008857 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 28072008858 Walker A/P-loop; other site 28072008859 ATP binding site [chemical binding]; other site 28072008860 Q-loop/lid; other site 28072008861 ABC transporter signature motif; other site 28072008862 Walker B; other site 28072008863 D-loop; other site 28072008864 H-loop/switch region; other site 28072008865 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072008866 NMT1-like family; Region: NMT1_2; pfam13379 28072008867 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 28072008868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072008869 dimer interface [polypeptide binding]; other site 28072008870 conserved gate region; other site 28072008871 putative PBP binding loops; other site 28072008872 ABC-ATPase subunit interface; other site 28072008873 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072008874 NMT1-like family; Region: NMT1_2; pfam13379 28072008875 hypothetical protein; Validated; Region: PRK00029 28072008876 Uncharacterized conserved protein [Function unknown]; Region: COG0397 28072008877 CHASE domain; Region: CHASE; cl01369 28072008878 PAS domain S-box; Region: sensory_box; TIGR00229 28072008879 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072008880 putative active site [active] 28072008881 heme pocket [chemical binding]; other site 28072008882 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072008883 PAS domain; Region: PAS_9; pfam13426 28072008884 putative active site [active] 28072008885 heme pocket [chemical binding]; other site 28072008886 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072008887 PAS domain; Region: PAS_9; pfam13426 28072008888 putative active site [active] 28072008889 heme pocket [chemical binding]; other site 28072008890 PAS domain S-box; Region: sensory_box; TIGR00229 28072008891 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072008892 putative active site [active] 28072008893 heme pocket [chemical binding]; other site 28072008894 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072008895 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072008896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072008897 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072008898 dimer interface [polypeptide binding]; other site 28072008899 phosphorylation site [posttranslational modification] 28072008900 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072008901 ATP binding site [chemical binding]; other site 28072008902 Mg2+ binding site [ion binding]; other site 28072008903 G-X-G motif; other site 28072008904 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072008905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008906 active site 28072008907 phosphorylation site [posttranslational modification] 28072008908 intermolecular recognition site; other site 28072008909 dimerization interface [polypeptide binding]; other site 28072008910 Response regulator receiver domain; Region: Response_reg; pfam00072 28072008911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008912 active site 28072008913 phosphorylation site [posttranslational modification] 28072008914 intermolecular recognition site; other site 28072008915 dimerization interface [polypeptide binding]; other site 28072008916 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072008917 putative binding surface; other site 28072008918 active site 28072008919 Response regulator receiver domain; Region: Response_reg; pfam00072 28072008920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072008921 active site 28072008922 phosphorylation site [posttranslational modification] 28072008923 intermolecular recognition site; other site 28072008924 dimerization interface [polypeptide binding]; other site 28072008925 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072008926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072008927 metal binding site [ion binding]; metal-binding site 28072008928 active site 28072008929 I-site; other site 28072008930 30S ribosomal protein S1; Reviewed; Region: PRK07400 28072008931 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 28072008932 RNA binding site [nucleotide binding]; other site 28072008933 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 28072008934 RNA binding site [nucleotide binding]; other site 28072008935 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 28072008936 RNA binding site [nucleotide binding]; other site 28072008937 Dienelactone hydrolase family; Region: DLH; pfam01738 28072008938 Predicted transcriptional regulators [Transcription]; Region: COG1725 28072008939 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 28072008940 DNA-binding site [nucleotide binding]; DNA binding site 28072008941 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072008942 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072008943 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 28072008944 calcium binding site 1 [ion binding]; other site 28072008945 active site 28072008946 catalytic triad [active] 28072008947 calcium binding site 2 [ion binding]; other site 28072008948 calcium binding site 3 [ion binding]; other site 28072008949 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG4935 28072008950 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 28072008951 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072008952 CVNH domain; Region: CVNH; pfam08881 28072008953 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072008954 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 28072008955 DNA binding residues [nucleotide binding] 28072008956 TPR repeat; Region: TPR_11; pfam13414 28072008957 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008958 binding surface 28072008959 TPR motif; other site 28072008960 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072008961 binding surface 28072008962 TPR motif; other site 28072008963 TPR repeat; Region: TPR_11; pfam13414 28072008964 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072008965 Coenzyme A binding pocket [chemical binding]; other site 28072008966 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 28072008967 dimer interface [polypeptide binding]; other site 28072008968 FMN binding site [chemical binding]; other site 28072008969 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072008970 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072008971 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 28072008972 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 28072008973 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 28072008974 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072008975 Walker A motif; other site 28072008976 ATP binding site [chemical binding]; other site 28072008977 Walker B motif; other site 28072008978 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 28072008979 Clp protease; Region: CLP_protease; pfam00574 28072008980 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 28072008981 oligomer interface [polypeptide binding]; other site 28072008982 active site residues [active] 28072008983 trigger factor; Provisional; Region: tig; PRK01490 28072008984 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 28072008985 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 28072008986 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 28072008987 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 28072008988 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 28072008989 dihydrodipicolinate synthase; Region: dapA; TIGR00674 28072008990 dimer interface [polypeptide binding]; other site 28072008991 active site 28072008992 catalytic residue [active] 28072008993 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 28072008994 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 28072008995 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 28072008996 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072008997 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 28072008998 putative acyl-acceptor binding pocket; other site 28072008999 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072009000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009001 active site 28072009002 phosphorylation site [posttranslational modification] 28072009003 intermolecular recognition site; other site 28072009004 dimerization interface [polypeptide binding]; other site 28072009005 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072009006 DNA binding site [nucleotide binding] 28072009007 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 28072009008 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 28072009009 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072009010 GAF domain; Region: GAF; pfam01590 28072009011 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072009012 PAS domain; Region: PAS_9; pfam13426 28072009013 putative active site [active] 28072009014 heme pocket [chemical binding]; other site 28072009015 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072009016 PAS fold; Region: PAS_3; pfam08447 28072009017 putative active site [active] 28072009018 heme pocket [chemical binding]; other site 28072009019 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072009020 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072009021 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009022 dimer interface [polypeptide binding]; other site 28072009023 phosphorylation site [posttranslational modification] 28072009024 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 28072009025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009026 ATP binding site [chemical binding]; other site 28072009027 G-X-G motif; other site 28072009028 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009030 active site 28072009031 phosphorylation site [posttranslational modification] 28072009032 intermolecular recognition site; other site 28072009033 dimerization interface [polypeptide binding]; other site 28072009034 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072009035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009036 active site 28072009037 phosphorylation site [posttranslational modification] 28072009038 intermolecular recognition site; other site 28072009039 dimerization interface [polypeptide binding]; other site 28072009040 PAS fold; Region: PAS_4; pfam08448 28072009041 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072009042 putative active site [active] 28072009043 heme pocket [chemical binding]; other site 28072009044 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072009045 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072009046 putative active site [active] 28072009047 heme pocket [chemical binding]; other site 28072009048 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009049 dimer interface [polypeptide binding]; other site 28072009050 phosphorylation site [posttranslational modification] 28072009051 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009052 ATP binding site [chemical binding]; other site 28072009053 Mg2+ binding site [ion binding]; other site 28072009054 G-X-G motif; other site 28072009055 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009057 active site 28072009058 phosphorylation site [posttranslational modification] 28072009059 intermolecular recognition site; other site 28072009060 dimerization interface [polypeptide binding]; other site 28072009061 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072009062 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 28072009063 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072009064 Walker A/P-loop; other site 28072009065 ATP binding site [chemical binding]; other site 28072009066 Q-loop/lid; other site 28072009067 ABC transporter signature motif; other site 28072009068 Walker B; other site 28072009069 D-loop; other site 28072009070 H-loop/switch region; other site 28072009071 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072009072 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072009073 active site 28072009074 ATP binding site [chemical binding]; other site 28072009075 substrate binding site [chemical binding]; other site 28072009076 activation loop (A-loop); other site 28072009077 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072009078 putative active site [active] 28072009079 Protein kinase; unclassified specificity; Region: STYKc; smart00221 28072009080 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072009081 active site 28072009082 ATP binding site [chemical binding]; other site 28072009083 substrate binding site [chemical binding]; other site 28072009084 activation loop (A-loop); other site 28072009085 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 28072009086 active site 28072009087 catalytic triad [active] 28072009088 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072009089 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 28072009090 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072009091 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 28072009092 putative active site [active] 28072009093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072009094 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072009095 Walker A/P-loop; other site 28072009096 ATP binding site [chemical binding]; other site 28072009097 Q-loop/lid; other site 28072009098 ABC transporter signature motif; other site 28072009099 Walker B; other site 28072009100 D-loop; other site 28072009101 H-loop/switch region; other site 28072009102 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 28072009103 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 28072009104 Integral membrane protein DUF92; Region: DUF92; pfam01940 28072009105 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072009106 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 28072009107 active site 28072009108 metal binding site [ion binding]; metal-binding site 28072009109 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072009110 Lipase (class 2); Region: Lipase_2; pfam01674 28072009111 Tetratricopeptide repeat; Region: TPR_16; pfam13432 28072009112 RNA methyltransferase, RsmE family; Region: TIGR00046 28072009113 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 28072009114 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009116 active site 28072009117 phosphorylation site [posttranslational modification] 28072009118 intermolecular recognition site; other site 28072009119 dimerization interface [polypeptide binding]; other site 28072009120 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009121 ATP binding site [chemical binding]; other site 28072009122 Mg2+ binding site [ion binding]; other site 28072009123 G-X-G motif; other site 28072009124 Uncharacterized conserved protein [Function unknown]; Region: COG3287 28072009125 FIST N domain; Region: FIST; pfam08495 28072009126 FIST C domain; Region: FIST_C; pfam10442 28072009127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072009128 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009129 ATP binding site [chemical binding]; other site 28072009130 Mg2+ binding site [ion binding]; other site 28072009131 G-X-G motif; other site 28072009132 NAD(P)H-quinone oxidoreductase subunit 2; Provisional; Region: PRK02504 28072009133 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072009134 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 28072009135 Family description; Region: UvrD_C_2; pfam13538 28072009136 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 28072009137 Peptidase family U32; Region: Peptidase_U32; pfam01136 28072009138 Collagenase; Region: DUF3656; pfam12392 28072009139 Peptidase family U32; Region: Peptidase_U32; cl03113 28072009140 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072009141 dimerization interface [polypeptide binding]; other site 28072009142 putative DNA binding site [nucleotide binding]; other site 28072009143 putative Zn2+ binding site [ion binding]; other site 28072009144 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 28072009145 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072009146 catalytic residues [active] 28072009147 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 28072009148 dimer interface [polypeptide binding]; other site 28072009149 FMN binding site [chemical binding]; other site 28072009150 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 28072009151 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 28072009152 C-terminal domain interface [polypeptide binding]; other site 28072009153 GSH binding site (G-site) [chemical binding]; other site 28072009154 dimer interface [polypeptide binding]; other site 28072009155 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 28072009156 N-terminal domain interface [polypeptide binding]; other site 28072009157 putative dimer interface [polypeptide binding]; other site 28072009158 active site 28072009159 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 28072009160 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 28072009161 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 28072009162 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 28072009163 Active site cavity [active] 28072009164 catalytic acid [active] 28072009165 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 28072009166 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 28072009167 active site 28072009168 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072009169 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072009170 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072009171 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072009172 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072009173 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072009174 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 28072009175 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 28072009176 Cl- selectivity filter; other site 28072009177 Cl- binding residues [ion binding]; other site 28072009178 pore gating glutamate residue; other site 28072009179 dimer interface [polypeptide binding]; other site 28072009180 H+/Cl- coupling transport residue; other site 28072009181 FOG: CBS domain [General function prediction only]; Region: COG0517 28072009182 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 28072009183 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 28072009184 Ligand Binding Site [chemical binding]; other site 28072009185 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072009186 Ligand Binding Site [chemical binding]; other site 28072009187 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 28072009188 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 28072009189 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072009190 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072009191 active site 28072009192 catalytic residues [active] 28072009193 DNA binding site [nucleotide binding] 28072009194 Int/Topo IB signature motif; other site 28072009195 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 28072009196 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 28072009197 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009199 active site 28072009200 phosphorylation site [posttranslational modification] 28072009201 intermolecular recognition site; other site 28072009202 dimerization interface [polypeptide binding]; other site 28072009203 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072009204 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072009205 putative active site [active] 28072009206 heme pocket [chemical binding]; other site 28072009207 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009208 dimer interface [polypeptide binding]; other site 28072009209 phosphorylation site [posttranslational modification] 28072009210 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009211 ATP binding site [chemical binding]; other site 28072009212 Mg2+ binding site [ion binding]; other site 28072009213 G-X-G motif; other site 28072009214 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072009215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009216 active site 28072009217 phosphorylation site [posttranslational modification] 28072009218 intermolecular recognition site; other site 28072009219 dimerization interface [polypeptide binding]; other site 28072009220 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 28072009221 CheB methylesterase; Region: CheB_methylest; pfam01339 28072009222 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 28072009223 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 28072009224 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 28072009225 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 28072009226 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 28072009227 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072009228 dimerization interface [polypeptide binding]; other site 28072009229 GAF domain; Region: GAF_2; pfam13185 28072009230 GAF domain; Region: GAF; pfam01590 28072009231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072009232 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 28072009233 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009234 ATP binding site [chemical binding]; other site 28072009235 Mg2+ binding site [ion binding]; other site 28072009236 G-X-G motif; other site 28072009237 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009239 active site 28072009240 phosphorylation site [posttranslational modification] 28072009241 intermolecular recognition site; other site 28072009242 dimerization interface [polypeptide binding]; other site 28072009243 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009245 active site 28072009246 phosphorylation site [posttranslational modification] 28072009247 intermolecular recognition site; other site 28072009248 dimerization interface [polypeptide binding]; other site 28072009249 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009251 active site 28072009252 phosphorylation site [posttranslational modification] 28072009253 intermolecular recognition site; other site 28072009254 dimerization interface [polypeptide binding]; other site 28072009255 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 28072009256 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 28072009257 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 28072009258 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 28072009259 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072009260 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 28072009261 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 28072009262 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 28072009263 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 28072009264 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 28072009265 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 28072009266 dimerization interface [polypeptide binding]; other site 28072009267 active site 28072009268 metal binding site [ion binding]; metal-binding site 28072009269 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 28072009270 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 28072009271 anti sigma factor interaction site; other site 28072009272 regulatory phosphorylation site [posttranslational modification]; other site 28072009273 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 28072009274 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 28072009275 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 28072009276 catalytic site [active] 28072009277 subunit interface [polypeptide binding]; other site 28072009278 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 28072009279 catalytic motif [active] 28072009280 Catalytic residue [active] 28072009281 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 28072009282 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 28072009283 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 28072009284 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 28072009285 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 28072009286 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 28072009287 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 28072009288 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 28072009289 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072009290 G1 box; other site 28072009291 GTP/Mg2+ binding site [chemical binding]; other site 28072009292 G2 box; other site 28072009293 PAS domain; Region: PAS; smart00091 28072009294 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072009295 PAS domain; Region: PAS_9; pfam13426 28072009296 putative active site [active] 28072009297 heme pocket [chemical binding]; other site 28072009298 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072009299 GAF domain; Region: GAF; pfam01590 28072009300 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072009301 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072009302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072009303 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009304 dimer interface [polypeptide binding]; other site 28072009305 phosphorylation site [posttranslational modification] 28072009306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009307 ATP binding site [chemical binding]; other site 28072009308 Mg2+ binding site [ion binding]; other site 28072009309 G-X-G motif; other site 28072009310 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 28072009311 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072009312 active site 28072009313 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 28072009314 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 28072009315 GTP/Mg2+ binding site [chemical binding]; other site 28072009316 G4 box; other site 28072009317 G5 box; other site 28072009318 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072009319 G1 box; other site 28072009320 G1 box; other site 28072009321 GTP/Mg2+ binding site [chemical binding]; other site 28072009322 Switch I region; other site 28072009323 G2 box; other site 28072009324 G2 box; other site 28072009325 Switch I region; other site 28072009326 G3 box; other site 28072009327 G3 box; other site 28072009328 Switch II region; other site 28072009329 Switch II region; other site 28072009330 G4 box; other site 28072009331 VanZ like family; Region: VanZ; pfam04892 28072009332 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 28072009333 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 28072009334 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072009335 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072009336 phosphopeptide binding site; other site 28072009337 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072009338 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072009339 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 28072009340 cyclase homology domain; Region: CHD; cd07302 28072009341 nucleotidyl binding site; other site 28072009342 metal binding site [ion binding]; metal-binding site 28072009343 dimer interface [polypeptide binding]; other site 28072009344 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 28072009345 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 28072009346 putative catalytic cysteine [active] 28072009347 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 28072009348 putative active site [active] 28072009349 metal binding site [ion binding]; metal-binding site 28072009350 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 28072009351 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072009352 FeS/SAM binding site; other site 28072009353 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 28072009354 Pyruvate formate lyase 1; Region: PFL1; cd01678 28072009355 coenzyme A binding site [chemical binding]; other site 28072009356 active site 28072009357 catalytic residues [active] 28072009358 glycine loop; other site 28072009359 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 28072009360 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 28072009361 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 28072009362 NAD(P) binding site [chemical binding]; other site 28072009363 catalytic residues [active] 28072009364 acetolactate synthase; Reviewed; Region: PRK08322 28072009365 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 28072009366 PYR/PP interface [polypeptide binding]; other site 28072009367 dimer interface [polypeptide binding]; other site 28072009368 TPP binding site [chemical binding]; other site 28072009369 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 28072009370 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 28072009371 TPP-binding site [chemical binding]; other site 28072009372 dimer interface [polypeptide binding]; other site 28072009373 Methyltransferase domain; Region: Methyltransf_23; pfam13489 28072009374 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072009375 S-adenosylmethionine binding site [chemical binding]; other site 28072009376 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 28072009377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072009378 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072009379 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072009380 active site 28072009381 ATP binding site [chemical binding]; other site 28072009382 substrate binding site [chemical binding]; other site 28072009383 activation loop (A-loop); other site 28072009384 methionine sulfoxide reductase A; Provisional; Region: PRK00058 28072009385 proton extrusion protein PcxA; Provisional; Region: PRK02507 28072009386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072009387 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 28072009388 Probable transposase; Region: OrfB_IS605; pfam01385 28072009389 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072009390 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 28072009391 Transposase IS200 like; Region: Y1_Tnp; pfam01797 28072009392 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 28072009393 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 28072009394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072009395 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072009396 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 28072009397 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072009398 DNA methylase; Region: N6_N4_Mtase; pfam01555 28072009399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072009400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009401 active site 28072009402 phosphorylation site [posttranslational modification] 28072009403 intermolecular recognition site; other site 28072009404 dimerization interface [polypeptide binding]; other site 28072009405 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072009406 DNA binding site [nucleotide binding] 28072009407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072009408 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009409 dimer interface [polypeptide binding]; other site 28072009410 phosphorylation site [posttranslational modification] 28072009411 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009412 ATP binding site [chemical binding]; other site 28072009413 Mg2+ binding site [ion binding]; other site 28072009414 G-X-G motif; other site 28072009415 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072009416 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 28072009417 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072009418 Phytochrome region; Region: PHY; pfam00360 28072009419 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009420 dimer interface [polypeptide binding]; other site 28072009421 phosphorylation site [posttranslational modification] 28072009422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009423 ATP binding site [chemical binding]; other site 28072009424 Mg2+ binding site [ion binding]; other site 28072009425 G-X-G motif; other site 28072009426 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009428 active site 28072009429 phosphorylation site [posttranslational modification] 28072009430 intermolecular recognition site; other site 28072009431 dimerization interface [polypeptide binding]; other site 28072009432 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072009433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009434 active site 28072009435 phosphorylation site [posttranslational modification] 28072009436 intermolecular recognition site; other site 28072009437 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072009438 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072009439 dimer interface [polypeptide binding]; other site 28072009440 phosphorylation site [posttranslational modification] 28072009441 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072009442 ATP binding site [chemical binding]; other site 28072009443 Mg2+ binding site [ion binding]; other site 28072009444 G-X-G motif; other site 28072009445 Homeodomain-like domain; Region: HTH_23; pfam13384 28072009446 Winged helix-turn helix; Region: HTH_29; pfam13551 28072009447 HTH-like domain; Region: HTH_21; pfam13276 28072009448 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072009449 ligand binding site [chemical binding]; other site 28072009450 flexible hinge region; other site 28072009451 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072009452 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072009453 putative active site [active] 28072009454 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072009455 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 28072009456 Walker A/P-loop; other site 28072009457 ATP binding site [chemical binding]; other site 28072009458 Q-loop/lid; other site 28072009459 ABC transporter signature motif; other site 28072009460 Walker B; other site 28072009461 D-loop; other site 28072009462 H-loop/switch region; other site 28072009463 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072009464 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 28072009465 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072009466 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 28072009467 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 28072009468 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072009469 nif11-class peptide radical SAM maturase 3; Region: rSAM_nif11_3; TIGR04103 28072009470 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072009471 FeS/SAM binding site; other site 28072009472 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 28072009473 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 28072009474 MRC1-like domain; Region: MRC1; pfam09444 28072009475 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 28072009476 elongation factor G; Reviewed; Region: PRK12740 28072009477 G1 box; other site 28072009478 putative GEF interaction site [polypeptide binding]; other site 28072009479 GTP/Mg2+ binding site [chemical binding]; other site 28072009480 Switch I region; other site 28072009481 G2 box; other site 28072009482 G3 box; other site 28072009483 Switch II region; other site 28072009484 G4 box; other site 28072009485 G5 box; other site 28072009486 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 28072009487 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 28072009488 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 28072009489 TPR repeat; Region: TPR_11; pfam13414 28072009490 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009491 binding surface 28072009492 TPR motif; other site 28072009493 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009494 TPR motif; other site 28072009495 TPR repeat; Region: TPR_11; pfam13414 28072009496 binding surface 28072009497 TPR repeat; Region: TPR_11; pfam13414 28072009498 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009499 binding surface 28072009500 TPR motif; other site 28072009501 PhoD-like phosphatase; Region: PhoD; pfam09423 28072009502 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 28072009503 putative active site [active] 28072009504 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072009505 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 28072009506 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 28072009507 active site 28072009508 dimer interface [polypeptide binding]; other site 28072009509 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 28072009510 active site 28072009511 dimer interface [polypeptide binding]; other site 28072009512 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072009513 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072009514 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072009515 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 28072009516 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 28072009517 homotetramer interface [polypeptide binding]; other site 28072009518 ligand binding site [chemical binding]; other site 28072009519 catalytic site [active] 28072009520 NAD binding site [chemical binding]; other site 28072009521 Origin of replication binding protein; Region: Herpes_ori_bp; pfam02399 28072009522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 28072009523 Phage terminase large subunit; Region: Terminase_3; cl12054 28072009524 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072009525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 28072009526 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 28072009527 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 28072009528 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 28072009529 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 28072009530 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 28072009531 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 28072009532 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 28072009533 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 28072009534 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072009535 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072009536 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 28072009537 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072009538 Peptidase M15; Region: Peptidase_M15_3; cl01194 28072009539 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 28072009540 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 28072009541 N-terminal catalytic domain of GIY-YIG intron endonuclease I-TevI, I-BmoI, I-BanI, I-BthII and similar proteins; Region: GIY-YIG_HE_I-TevI_like; cd10437 28072009542 GIY-YIG motif/motif A; other site 28072009543 putative active site [active] 28072009544 catalytic site [active] 28072009545 putative metal binding site [ion binding]; other site 28072009546 NUMOD3 motif (2 copies); Region: NUMOD3; pfam07460 28072009547 phage tail protein domain; Region: tail_TIGR02242 28072009548 Phage Tail Collar Domain; Region: Collar; pfam07484 28072009549 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 28072009550 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 28072009551 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 28072009552 substrate binding site [chemical binding]; other site 28072009553 oxyanion hole (OAH) forming residues; other site 28072009554 trimer interface [polypeptide binding]; other site 28072009555 Protein of unknown function (DUF721); Region: DUF721; cl02324 28072009556 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 28072009557 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 28072009558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 28072009559 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 28072009560 E3 interaction surface; other site 28072009561 lipoyl attachment site [posttranslational modification]; other site 28072009562 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072009563 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 28072009564 Protein export membrane protein; Region: SecD_SecF; cl14618 28072009565 Uncharacterized conserved protein [Function unknown]; Region: COG2912 28072009566 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 28072009567 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009568 binding surface 28072009569 TPR motif; other site 28072009570 CHAT domain; Region: CHAT; cl17868 28072009571 AAA ATPase domain; Region: AAA_16; pfam13191 28072009572 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072009573 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072009574 structural tetrad; other site 28072009575 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072009576 structural tetrad; other site 28072009577 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072009578 WD domain, G-beta repeat; Region: WD40; pfam00400 28072009579 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072009580 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072009581 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072009582 DevC protein; Region: devC; TIGR01185 28072009583 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072009584 FtsX-like permease family; Region: FtsX; pfam02687 28072009585 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072009586 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072009587 Walker A/P-loop; other site 28072009588 ATP binding site [chemical binding]; other site 28072009589 Q-loop/lid; other site 28072009590 ABC transporter signature motif; other site 28072009591 Walker B; other site 28072009592 D-loop; other site 28072009593 H-loop/switch region; other site 28072009594 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 28072009595 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072009596 active site 28072009597 motif I; other site 28072009598 motif II; other site 28072009599 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 28072009600 phosphoribulokinase; Provisional; Region: PRK07429 28072009601 Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH...; Region: PRK; cd02026 28072009602 active site 28072009603 agmatinase; Region: agmatinase; TIGR01230 28072009604 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 28072009605 putative active site [active] 28072009606 Mn binding site [ion binding]; other site 28072009607 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 28072009608 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072009609 Ca2+ binding site [ion binding]; other site 28072009610 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072009611 Ca2+ binding site [ion binding]; other site 28072009612 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072009613 Ca2+ binding site [ion binding]; other site 28072009614 CARDB; Region: CARDB; pfam07705 28072009615 CARDB; Region: CARDB; pfam07705 28072009616 CARDB; Region: CARDB; pfam07705 28072009617 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 28072009618 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072009619 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072009620 RHS Repeat; Region: RHS_repeat; pfam05593 28072009621 RHS Repeat; Region: RHS_repeat; cl11982 28072009622 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072009623 RHS Repeat; Region: RHS_repeat; pfam05593 28072009624 RHS Repeat; Region: RHS_repeat; pfam05593 28072009625 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 28072009626 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 28072009627 Calx-beta domain; Region: Calx-beta; cl02522 28072009628 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 28072009629 dockerin binding interface; other site 28072009630 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 28072009631 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072009632 non-specific DNA binding site [nucleotide binding]; other site 28072009633 salt bridge; other site 28072009634 sequence-specific DNA binding site [nucleotide binding]; other site 28072009635 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 28072009636 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 28072009637 NodB motif; other site 28072009638 active site 28072009639 catalytic site [active] 28072009640 metal binding site [ion binding]; metal-binding site 28072009641 putative glycosyl transferase; Provisional; Region: PRK10307 28072009642 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 28072009643 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 28072009644 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 28072009645 Transposase [DNA replication, recombination, and repair]; Region: COG5433 28072009646 Transposase [DNA replication, recombination, and repair]; Region: COG5433 28072009647 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 28072009648 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072009649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072009650 homodimer interface [polypeptide binding]; other site 28072009651 catalytic residue [active] 28072009652 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072009653 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 28072009654 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 28072009655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072009656 AMIN domain; Region: AMIN; pfam11741 28072009657 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072009658 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072009659 N-terminal plug; other site 28072009660 ligand-binding site [chemical binding]; other site 28072009661 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072009662 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072009663 siderophore binding site; other site 28072009664 Predicted metal-binding protein [Function unknown]; Region: COG5469 28072009665 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072009666 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072009667 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 28072009668 Walker A/P-loop; other site 28072009669 ATP binding site [chemical binding]; other site 28072009670 Q-loop/lid; other site 28072009671 ABC transporter signature motif; other site 28072009672 Walker B; other site 28072009673 D-loop; other site 28072009674 H-loop/switch region; other site 28072009675 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072009676 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072009677 siderophore binding site; other site 28072009678 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 28072009679 putative dimer interface [polypeptide binding]; other site 28072009680 putative [2Fe-2S] cluster binding site [ion binding]; other site 28072009681 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 28072009682 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072009683 N-terminal plug; other site 28072009684 ligand-binding site [chemical binding]; other site 28072009685 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 28072009686 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 28072009687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072009688 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 28072009689 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 28072009690 Walker A/P-loop; other site 28072009691 ATP binding site [chemical binding]; other site 28072009692 Q-loop/lid; other site 28072009693 ABC transporter signature motif; other site 28072009694 Walker B; other site 28072009695 D-loop; other site 28072009696 H-loop/switch region; other site 28072009697 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 28072009698 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 28072009699 ABC-ATPase subunit interface; other site 28072009700 dimer interface [polypeptide binding]; other site 28072009701 putative PBP binding regions; other site 28072009702 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 28072009703 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 28072009704 ABC-ATPase subunit interface; other site 28072009705 dimer interface [polypeptide binding]; other site 28072009706 putative PBP binding regions; other site 28072009707 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072009708 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072009709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072009710 Walker A/P-loop; other site 28072009711 ATP binding site [chemical binding]; other site 28072009712 Q-loop/lid; other site 28072009713 ABC transporter signature motif; other site 28072009714 Walker B; other site 28072009715 D-loop; other site 28072009716 H-loop/switch region; other site 28072009717 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072009718 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072009719 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072009720 Walker A/P-loop; other site 28072009721 ATP binding site [chemical binding]; other site 28072009722 Q-loop/lid; other site 28072009723 ABC transporter signature motif; other site 28072009724 Walker B; other site 28072009725 D-loop; other site 28072009726 H-loop/switch region; other site 28072009727 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 28072009728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072009729 AMIN domain; Region: AMIN; pfam11741 28072009730 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072009731 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072009732 N-terminal plug; other site 28072009733 ligand-binding site [chemical binding]; other site 28072009734 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072009735 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072009736 siderophore binding site; other site 28072009737 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 28072009738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072009739 AMIN domain; Region: AMIN; pfam11741 28072009740 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072009741 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072009742 N-terminal plug; other site 28072009743 ligand-binding site [chemical binding]; other site 28072009744 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072009745 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072009746 siderophore binding site; other site 28072009747 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 28072009748 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 28072009749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 28072009750 AMIN domain; Region: AMIN; pfam11741 28072009751 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 28072009752 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072009753 N-terminal plug; other site 28072009754 ligand-binding site [chemical binding]; other site 28072009755 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072009756 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 28072009757 siderophore binding site; other site 28072009758 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 28072009759 putative dimer interface [polypeptide binding]; other site 28072009760 putative [2Fe-2S] cluster binding site [ion binding]; other site 28072009761 Photosystem II protein; Region: PSII; cl08223 28072009762 Photosystem II protein; Region: PSII; cl08223 28072009763 chlorophyll a/b binding light-harvesting protein; Region: PS_antenn_a_b; TIGR03041 28072009764 Photosystem I reaction centre subunit XI; Region: PsaL; pfam02605 28072009765 flavodoxin FldA; Validated; Region: PRK09267 28072009766 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072009767 chlorophyll a/b binding light-harvesting protein; Region: PS_antenn_a_b; TIGR03041 28072009768 Photosystem II protein; Region: PSII; cl08223 28072009769 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072009770 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 28072009771 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072009772 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072009773 structural tetrad; other site 28072009774 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 28072009775 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 28072009776 Ferritin-like domain; Region: Ferritin; pfam00210 28072009777 ferroxidase diiron center [ion binding]; other site 28072009778 FeoA domain; Region: FeoA; pfam04023 28072009779 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 28072009780 Nucleoside recognition; Region: Gate; pfam07670 28072009781 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 28072009782 Nucleoside recognition; Region: Gate; pfam07670 28072009783 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 28072009784 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 28072009785 G1 box; other site 28072009786 GTP/Mg2+ binding site [chemical binding]; other site 28072009787 Switch I region; other site 28072009788 G2 box; other site 28072009789 G3 box; other site 28072009790 Switch II region; other site 28072009791 G4 box; other site 28072009792 G5 box; other site 28072009793 PIN domain; Region: PIN_3; cl17397 28072009794 Src Homology 3 domain superfamily; Region: SH3; cl17036 28072009795 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 28072009796 MoaE homodimer interface [polypeptide binding]; other site 28072009797 MoaD interaction [polypeptide binding]; other site 28072009798 active site residues [active] 28072009799 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 28072009800 Isochorismatase family; Region: Isochorismatase; pfam00857 28072009801 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 28072009802 catalytic triad [active] 28072009803 conserved cis-peptide bond; other site 28072009804 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 28072009805 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 28072009806 active site 28072009807 putative substrate binding pocket [chemical binding]; other site 28072009808 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 28072009809 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 28072009810 Nucleoside recognition; Region: Gate; pfam07670 28072009811 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 28072009812 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 28072009813 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009814 binding surface 28072009815 TPR motif; other site 28072009816 TPR repeat; Region: TPR_11; pfam13414 28072009817 TPR repeat; Region: TPR_11; pfam13414 28072009818 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009819 binding surface 28072009820 TPR motif; other site 28072009821 TPR repeat; Region: TPR_11; pfam13414 28072009822 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009823 binding surface 28072009824 TPR motif; other site 28072009825 TPR repeat; Region: TPR_11; pfam13414 28072009826 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009827 binding surface 28072009828 TPR motif; other site 28072009829 TPR repeat; Region: TPR_11; pfam13414 28072009830 TPR repeat; Region: TPR_11; pfam13414 28072009831 TPR repeat; Region: TPR_11; pfam13414 28072009832 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009833 binding surface 28072009834 TPR motif; other site 28072009835 TPR repeat; Region: TPR_11; pfam13414 28072009836 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009837 binding surface 28072009838 TPR motif; other site 28072009839 TPR repeat; Region: TPR_11; pfam13414 28072009840 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072009841 binding surface 28072009842 TPR motif; other site 28072009843 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072009844 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 28072009845 homodimer interface [polypeptide binding]; other site 28072009846 substrate-cofactor binding pocket; other site 28072009847 Aminotransferase class IV; Region: Aminotran_4; pfam01063 28072009848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072009849 catalytic residue [active] 28072009850 FtsH Extracellular; Region: FtsH_ext; pfam06480 28072009851 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 28072009852 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072009853 Walker A motif; other site 28072009854 ATP binding site [chemical binding]; other site 28072009855 Walker B motif; other site 28072009856 arginine finger; other site 28072009857 Peptidase family M41; Region: Peptidase_M41; pfam01434 28072009858 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 28072009859 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 28072009860 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 28072009861 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 28072009862 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072009863 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072009864 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 28072009865 Lumazine binding domain; Region: Lum_binding; pfam00677 28072009866 Lumazine binding domain; Region: Lum_binding; pfam00677 28072009867 Uncharacterized conserved protein [Function unknown]; Region: COG1259 28072009868 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 28072009869 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072009870 active site 28072009871 catalytic tetrad [active] 28072009872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072009873 AAA domain; Region: AAA_21; pfam13304 28072009874 Walker A/P-loop; other site 28072009875 ATP binding site [chemical binding]; other site 28072009876 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072009877 Q-loop/lid; other site 28072009878 ABC transporter signature motif; other site 28072009879 Walker B; other site 28072009880 D-loop; other site 28072009881 H-loop/switch region; other site 28072009882 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072009883 Response regulator receiver domain; Region: Response_reg; pfam00072 28072009884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072009885 active site 28072009886 phosphorylation site [posttranslational modification] 28072009887 intermolecular recognition site; other site 28072009888 dimerization interface [polypeptide binding]; other site 28072009889 GAF domain; Region: GAF; pfam01590 28072009890 GAF domain; Region: GAF_2; pfam13185 28072009891 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 28072009892 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072009893 S-adenosylmethionine binding site [chemical binding]; other site 28072009894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 28072009895 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 28072009896 Amidase; Region: Amidase; pfam01425 28072009897 bile acid transporter; Region: bass; TIGR00841 28072009898 Sodium Bile acid symporter family; Region: SBF; cl17470 28072009899 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 28072009900 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 28072009901 active site 28072009902 multimer interface [polypeptide binding]; other site 28072009903 arginine decarboxylase; Provisional; Region: PRK05354 28072009904 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 28072009905 dimer interface [polypeptide binding]; other site 28072009906 active site 28072009907 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 28072009908 catalytic residues [active] 28072009909 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 28072009910 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 28072009911 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 28072009912 active site 28072009913 Substrate binding site; other site 28072009914 Mg++ binding site; other site 28072009915 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 28072009916 putative trimer interface [polypeptide binding]; other site 28072009917 putative CoA binding site [chemical binding]; other site 28072009918 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 28072009919 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 28072009920 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 28072009921 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 28072009922 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 28072009923 MgtC family; Region: MgtC; pfam02308 28072009924 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 28072009925 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 28072009926 EamA-like transporter family; Region: EamA; pfam00892 28072009927 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 28072009928 PemK-like protein; Region: PemK; pfam02452 28072009929 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 28072009930 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072009931 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 28072009932 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 28072009933 putative active site [active] 28072009934 putative metal binding site [ion binding]; other site 28072009935 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 28072009936 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 28072009937 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 28072009938 acyl-activating enzyme (AAE) consensus motif; other site 28072009939 AMP binding site [chemical binding]; other site 28072009940 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 28072009941 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 28072009942 hypothetical protein; Provisional; Region: PRK06849 28072009943 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 28072009944 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 28072009945 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 28072009946 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 28072009947 2-epi-5-epi-valiolone synthase (EEVS); Region: EEVS; cd08199 28072009948 active site 28072009949 metal binding site [ion binding]; metal-binding site 28072009950 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 28072009951 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072009952 FeS/SAM binding site; other site 28072009953 HemN C-terminal domain; Region: HemN_C; pfam06969 28072009954 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 28072009955 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 28072009956 putative active site [active] 28072009957 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 28072009958 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 28072009959 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 28072009960 metal ion-dependent adhesion site (MIDAS); other site 28072009961 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 28072009962 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 28072009963 metal ion-dependent adhesion site (MIDAS); other site 28072009964 Uncharacterized protein family (UPF0146); Region: UPF0146; cl00552 28072009965 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 28072009966 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 28072009967 oligomer interface [polypeptide binding]; other site 28072009968 active site residues [active] 28072009969 Clp protease; Region: CLP_protease; pfam00574 28072009970 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 28072009971 oligomer interface [polypeptide binding]; other site 28072009972 active site residues [active] 28072009973 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 28072009974 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072009975 HSP70 interaction site [polypeptide binding]; other site 28072009976 pheophorbide a oxygenase; Region: PLN02518 28072009977 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 28072009978 iron-sulfur cluster [ion binding]; other site 28072009979 [2Fe-2S] cluster binding site [ion binding]; other site 28072009980 Pheophorbide a oxygenase; Region: PaO; pfam08417 28072009981 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 28072009982 MoaE interaction surface [polypeptide binding]; other site 28072009983 MoeB interaction surface [polypeptide binding]; other site 28072009984 thiocarboxylated glycine; other site 28072009985 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 28072009986 Domain of unknown function DUF11; Region: DUF11; cl17728 28072009987 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072009988 conserved repeat domain; Region: B_ant_repeat; TIGR01451 28072009989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 28072009990 threonine synthase; Validated; Region: PRK07591 28072009991 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 28072009992 homodimer interface [polypeptide binding]; other site 28072009993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072009994 catalytic residue [active] 28072009995 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 28072009996 MoaE interaction surface [polypeptide binding]; other site 28072009997 MoeB interaction surface [polypeptide binding]; other site 28072009998 thiocarboxylated glycine; other site 28072009999 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 28072010000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 28072010001 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 28072010002 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072010003 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072010004 active site 28072010005 DNA binding site [nucleotide binding] 28072010006 Int/Topo IB signature motif; other site 28072010007 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 28072010008 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 28072010009 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 28072010010 active site 28072010011 DNA binding site [nucleotide binding] 28072010012 Int/Topo IB signature motif; other site 28072010013 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072010014 Cytochrome P450; Region: p450; pfam00067 28072010015 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 28072010016 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 28072010017 P-loop; other site 28072010018 Magnesium ion binding site [ion binding]; other site 28072010019 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 28072010020 Peptidase S46; Region: Peptidase_S46; pfam10459 28072010021 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 28072010022 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 28072010023 Predicted permeases [General function prediction only]; Region: COG0679 28072010024 SnoaL-like domain; Region: SnoaL_2; pfam12680 28072010025 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 28072010026 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072010027 iron-sulfur cluster [ion binding]; other site 28072010028 [2Fe-2S] cluster binding site [ion binding]; other site 28072010029 Pheophorbide a oxygenase; Region: PaO; pfam08417 28072010030 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072010031 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072010032 S-adenosylmethionine binding site [chemical binding]; other site 28072010033 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 28072010034 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 28072010035 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 28072010036 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 28072010037 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 28072010038 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072010039 Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the...; Region: Cyclic_amidohydrolases; cd01302 28072010040 active site 28072010041 tetramer interface [polypeptide binding]; other site 28072010042 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 28072010043 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072010044 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072010045 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 28072010046 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072010047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072010048 Walker A/P-loop; other site 28072010049 ATP binding site [chemical binding]; other site 28072010050 Q-loop/lid; other site 28072010051 ABC transporter signature motif; other site 28072010052 Walker B; other site 28072010053 D-loop; other site 28072010054 H-loop/switch region; other site 28072010055 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 28072010056 substrate binding pocket [chemical binding]; other site 28072010057 substrate-Mg2+ binding site; other site 28072010058 aspartate-rich region 1; other site 28072010059 aspartate-rich region 2; other site 28072010060 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl17313 28072010061 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 28072010062 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 28072010063 putative active site [active] 28072010064 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072010065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072010066 Walker A/P-loop; other site 28072010067 ATP binding site [chemical binding]; other site 28072010068 Q-loop/lid; other site 28072010069 ABC transporter signature motif; other site 28072010070 Walker B; other site 28072010071 D-loop; other site 28072010072 H-loop/switch region; other site 28072010073 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 28072010074 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 28072010075 dimer interface [polypeptide binding]; other site 28072010076 motif 1; other site 28072010077 active site 28072010078 motif 2; other site 28072010079 motif 3; other site 28072010080 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 28072010081 anticodon binding site; other site 28072010082 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 28072010083 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 28072010084 NAD(P) binding site [chemical binding]; other site 28072010085 catalytic residues [active] 28072010086 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 28072010087 Predicted amidohydrolase [General function prediction only]; Region: COG0388 28072010088 putative active site [active] 28072010089 catalytic triad [active] 28072010090 putative dimer interface [polypeptide binding]; other site 28072010091 Red chlorophyll catabolite reductase (RCC reductase); Region: RCC_reductase; cl05747 28072010092 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 28072010093 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 28072010094 tetramer interface [polypeptide binding]; other site 28072010095 active site 28072010096 Mg2+/Mn2+ binding site [ion binding]; other site 28072010097 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 28072010098 diiron binding motif [ion binding]; other site 28072010099 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 28072010100 heme binding pocket [chemical binding]; other site 28072010101 heme ligand [chemical binding]; other site 28072010102 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 28072010103 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072010104 FeS/SAM binding site; other site 28072010105 HemN C-terminal domain; Region: HemN_C; pfam06969 28072010106 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 28072010107 Uncharacterized conserved protein [Function unknown]; Region: COG1633 28072010108 dimanganese center [ion binding]; other site 28072010109 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 28072010110 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 28072010111 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 28072010112 purine monophosphate binding site [chemical binding]; other site 28072010113 dimer interface [polypeptide binding]; other site 28072010114 putative catalytic residues [active] 28072010115 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 28072010116 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 28072010117 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 28072010118 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 28072010119 Coenzyme A binding pocket [chemical binding]; other site 28072010120 EamA-like transporter family; Region: EamA; pfam00892 28072010121 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 28072010122 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 28072010123 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072010124 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 28072010125 Chain length determinant protein; Region: Wzz; cl15801 28072010126 AAA domain; Region: AAA_31; pfam13614 28072010127 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072010128 HSP70 interaction site [polypeptide binding]; other site 28072010129 TPR repeat; Region: TPR_11; pfam13414 28072010130 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010131 binding surface 28072010132 TPR motif; other site 28072010133 Tocopherol cyclase; Region: Tocopherol_cycl; pfam14249 28072010134 Uncharacterized conserved protein [Function unknown]; Region: COG1434 28072010135 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 28072010136 putative active site [active] 28072010137 Uncharacterized small conserved protein [Function unknown]; Region: COG5626 28072010138 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072010139 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072010140 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 28072010141 putative acyl-acceptor binding pocket; other site 28072010142 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 28072010143 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 28072010144 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 28072010145 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 28072010146 dimer interface [polypeptide binding]; other site 28072010147 active site 28072010148 CoA binding pocket [chemical binding]; other site 28072010149 putative phosphate acyltransferase; Provisional; Region: PRK05331 28072010150 multifunctional aminopeptidase A; Provisional; Region: PRK00913 28072010151 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 28072010152 interface (dimer of trimers) [polypeptide binding]; other site 28072010153 Substrate-binding/catalytic site; other site 28072010154 Zn-binding sites [ion binding]; other site 28072010155 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072010156 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 28072010157 Walker A/P-loop; other site 28072010158 ATP binding site [chemical binding]; other site 28072010159 Q-loop/lid; other site 28072010160 ABC transporter signature motif; other site 28072010161 Walker B; other site 28072010162 D-loop; other site 28072010163 H-loop/switch region; other site 28072010164 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010165 TPR motif; other site 28072010166 binding surface 28072010167 Tetratricopeptide repeat; Region: TPR_16; pfam13432 28072010168 Protein of unknown function (DUF3531); Region: DUF3531; pfam12049 28072010169 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 28072010170 nudix motif; other site 28072010171 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 28072010172 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072010173 ATP binding site [chemical binding]; other site 28072010174 putative Mg++ binding site [ion binding]; other site 28072010175 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072010176 nucleotide binding region [chemical binding]; other site 28072010177 ATP-binding site [chemical binding]; other site 28072010178 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 28072010179 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 28072010180 pyrroline-5-carboxylate reductase; Region: PLN02688 28072010181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 28072010182 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 28072010183 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 28072010184 catalytic residue [active] 28072010185 Protein of unknown function (DUF3539); Region: DUF3539; pfam12058 28072010186 anthranilate synthase component I-like protein; Validated; Region: PRK05940 28072010187 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 28072010188 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 28072010189 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 28072010190 GTP-binding protein Der; Reviewed; Region: PRK00093 28072010191 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 28072010192 G1 box; other site 28072010193 GTP/Mg2+ binding site [chemical binding]; other site 28072010194 Switch I region; other site 28072010195 G2 box; other site 28072010196 Switch II region; other site 28072010197 G3 box; other site 28072010198 G4 box; other site 28072010199 G5 box; other site 28072010200 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 28072010201 G1 box; other site 28072010202 GTP/Mg2+ binding site [chemical binding]; other site 28072010203 Switch I region; other site 28072010204 G2 box; other site 28072010205 G3 box; other site 28072010206 Switch II region; other site 28072010207 G4 box; other site 28072010208 G5 box; other site 28072010209 phosphodiesterase YaeI; Provisional; Region: PRK11340 28072010210 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 28072010211 putative active site [active] 28072010212 putative metal binding site [ion binding]; other site 28072010213 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072010214 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 28072010215 [2Fe-2S] cluster binding site [ion binding]; other site 28072010216 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 28072010217 metal-binding site [ion binding] 28072010218 TRX-like protein A (TxlA) family; TxlA was originally isolated from the cyanobacterium Synechococcus. It is found only in oxygenic photosynthetic organisms. TRX is a small enzyme that participate in redox reactions, via the reversible oxidation of an...; Region: TxlA; cd02950 28072010219 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072010220 catalytic residues [active] 28072010221 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 28072010222 Peptidase M15; Region: Peptidase_M15_3; pfam08291 28072010223 dephospho-CoA kinase; Region: TIGR00152 28072010224 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 28072010225 CoA-binding site [chemical binding]; other site 28072010226 ATP-binding [chemical binding]; other site 28072010227 AAA ATPase domain; Region: AAA_16; pfam13191 28072010228 NACHT domain; Region: NACHT; pfam05729 28072010229 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072010230 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010231 structural tetrad; other site 28072010232 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010233 structural tetrad; other site 28072010234 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010235 structural tetrad; other site 28072010236 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072010237 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 28072010238 tellurium resistance terB-like protein; Region: terB_like; cd07177 28072010239 metal binding site [ion binding]; metal-binding site 28072010240 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 28072010241 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072010242 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072010243 S-adenosylmethionine binding site [chemical binding]; other site 28072010244 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 28072010245 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072010246 Cytochrome P450; Region: p450; pfam00067 28072010247 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 28072010248 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 28072010249 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072010250 catalytic residue [active] 28072010251 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 28072010252 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 28072010253 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072010254 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 28072010255 hypothetical protein; Validated; Region: PRK00110 28072010256 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 28072010257 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 28072010258 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072010259 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010260 binding surface 28072010261 TPR motif; other site 28072010262 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072010263 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072010264 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 28072010265 Fasciclin domain; Region: Fasciclin; pfam02469 28072010266 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 28072010267 maleylacetoacetate isomerase; Region: maiA; TIGR01262 28072010268 C-terminal domain interface [polypeptide binding]; other site 28072010269 GSH binding site (G-site) [chemical binding]; other site 28072010270 dimer interface [polypeptide binding]; other site 28072010271 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 28072010272 N-terminal domain interface [polypeptide binding]; other site 28072010273 HAS barrel domain; Region: HAS-barrel; pfam09378 28072010274 HerA helicase [Replication, recombination, and repair]; Region: COG0433 28072010275 Domain of unknown function DUF87; Region: DUF87; pfam01935 28072010276 RNA polymerase sigma factor; Validated; Region: PRK05949 28072010277 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 28072010278 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072010279 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072010280 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072010281 DNA binding residues [nucleotide binding] 28072010282 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 28072010283 tetramer (dimer of dimers) interface [polypeptide binding]; other site 28072010284 active site 28072010285 dimer interface [polypeptide binding]; other site 28072010286 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 28072010287 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 28072010288 catalytic triad [active] 28072010289 AMIN domain; Region: AMIN; pfam11741 28072010290 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 28072010291 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 28072010292 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 28072010293 dimerization interface [polypeptide binding]; other site 28072010294 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072010295 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072010296 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 28072010297 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 28072010298 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072010299 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072010300 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 28072010301 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072010302 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072010303 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 28072010304 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 28072010305 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 28072010306 NAD(P) binding site [chemical binding]; other site 28072010307 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 28072010308 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 28072010309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072010310 BT1 family; Region: BT1; pfam03092 28072010311 putative substrate translocation pore; other site 28072010312 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05952 28072010313 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 28072010314 dimer interface [polypeptide binding]; other site 28072010315 active site 28072010316 cyclophilin_TLP40_like: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl...; Region: cyclophilin_TLP40_like; cd01924 28072010317 active site 28072010318 photosystem I assembly protein Ycf4; Provisional; Region: PRK02542 28072010319 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 28072010320 D1 interface; other site 28072010321 chlorophyll binding site; other site 28072010322 pheophytin binding site; other site 28072010323 beta carotene binding site; other site 28072010324 cytochrome b559 beta interface; other site 28072010325 quinone binding site; other site 28072010326 cytochrome b559 alpha interface; other site 28072010327 protein J interface; other site 28072010328 protein H interface; other site 28072010329 protein X interface; other site 28072010330 core light harvesting protein interface; other site 28072010331 protein L interface; other site 28072010332 CP43 interface; other site 28072010333 protein T interface; other site 28072010334 Fe binding site [ion binding]; other site 28072010335 protein M interface; other site 28072010336 Mn-stabilizing polypeptide interface; other site 28072010337 bromide binding site; other site 28072010338 cytochrome c-550 interface; other site 28072010339 photosystem II 44 kDa protein; Region: psbC; CHL00035 28072010340 photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast; Region: psbC; TIGR01153 28072010341 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 28072010342 Uncharacterized conserved protein [Function unknown]; Region: COG4279 28072010343 SWIM zinc finger; Region: SWIM; pfam04434 28072010344 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 28072010345 SNF2 Helicase protein; Region: DUF3670; pfam12419 28072010346 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072010347 ATP binding site [chemical binding]; other site 28072010348 putative Mg++ binding site [ion binding]; other site 28072010349 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072010350 nucleotide binding region [chemical binding]; other site 28072010351 ATP-binding site [chemical binding]; other site 28072010352 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 28072010353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072010354 Coenzyme A binding pocket [chemical binding]; other site 28072010355 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 28072010356 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 28072010357 RNase E interface [polypeptide binding]; other site 28072010358 trimer interface [polypeptide binding]; other site 28072010359 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 28072010360 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 28072010361 RNase E interface [polypeptide binding]; other site 28072010362 trimer interface [polypeptide binding]; other site 28072010363 active site 28072010364 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 28072010365 putative nucleic acid binding region [nucleotide binding]; other site 28072010366 G-X-X-G motif; other site 28072010367 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 28072010368 RNA binding site [nucleotide binding]; other site 28072010369 domain interface; other site 28072010370 Protein of unknown function (DUF3146); Region: DUF3146; pfam11344 28072010371 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 28072010372 metal binding site 2 [ion binding]; metal-binding site 28072010373 putative DNA binding helix; other site 28072010374 metal binding site 1 [ion binding]; metal-binding site 28072010375 dimer interface [polypeptide binding]; other site 28072010376 structural Zn2+ binding site [ion binding]; other site 28072010377 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072010378 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072010379 phosphopeptide binding site; other site 28072010380 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 28072010381 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 28072010382 metal-binding site [ion binding] 28072010383 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072010384 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072010385 motif I; other site 28072010386 motif II; other site 28072010387 CAAX protease self-immunity; Region: Abi; pfam02517 28072010388 phage shock protein C; Region: phageshock_pspC; TIGR02978 28072010389 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072010390 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010391 structural tetrad; other site 28072010392 PhoD-like phosphatase; Region: PhoD; pfam09423 28072010393 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 28072010394 putative active site [active] 28072010395 putative metal binding site [ion binding]; other site 28072010396 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 28072010397 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 28072010398 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 28072010399 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072010400 Walker A motif; other site 28072010401 ATP binding site [chemical binding]; other site 28072010402 Walker B motif; other site 28072010403 arginine finger; other site 28072010404 Peptidase family M41; Region: Peptidase_M41; pfam01434 28072010405 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072010406 Domain of unknown function DUF20; Region: UPF0118; pfam01594 28072010407 Uncharacterized conserved protein [Function unknown]; Region: COG4715 28072010408 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 28072010409 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072010410 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 28072010411 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 28072010412 active site 28072010413 ribulose/triose binding site [chemical binding]; other site 28072010414 phosphate binding site [ion binding]; other site 28072010415 substrate (anthranilate) binding pocket [chemical binding]; other site 28072010416 product (indole) binding pocket [chemical binding]; other site 28072010417 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 28072010418 Uncharacterized conserved protein [Function unknown]; Region: COG1430 28072010419 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072010420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010421 active site 28072010422 phosphorylation site [posttranslational modification] 28072010423 intermolecular recognition site; other site 28072010424 dimerization interface [polypeptide binding]; other site 28072010425 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072010426 DNA binding site [nucleotide binding] 28072010427 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02649 28072010428 ATP-NAD kinase; Region: NAD_kinase; pfam01513 28072010429 Ycf39; Provisional; Region: ycf39; CHL00194 28072010430 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 28072010431 NAD(P) binding site [chemical binding]; other site 28072010432 putative active site [active] 28072010433 cytochrome b6-f complex subunit PetM; Reviewed; Region: petM; PRK11876 28072010434 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK02746 28072010435 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 28072010436 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072010437 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010438 active site 28072010439 phosphorylation site [posttranslational modification] 28072010440 intermolecular recognition site; other site 28072010441 dimerization interface [polypeptide binding]; other site 28072010442 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072010443 DNA binding site [nucleotide binding] 28072010444 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 28072010445 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 28072010446 Walker A motif; other site 28072010447 ATP binding site [chemical binding]; other site 28072010448 Walker B motif; other site 28072010449 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 28072010450 active site residue [active] 28072010451 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 28072010452 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 28072010453 catalytic site [active] 28072010454 putative active site [active] 28072010455 putative substrate binding site [chemical binding]; other site 28072010456 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 28072010457 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 28072010458 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 28072010459 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 28072010460 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 28072010461 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 28072010462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072010463 catalytic residue [active] 28072010464 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 28072010465 putative rRNA binding site [nucleotide binding]; other site 28072010466 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 28072010467 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072010468 S-adenosylmethionine binding site [chemical binding]; other site 28072010469 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 28072010470 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 28072010471 dimerization interface [polypeptide binding]; other site 28072010472 putative active cleft [active] 28072010473 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 28072010474 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 28072010475 putative ADP-binding pocket [chemical binding]; other site 28072010476 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 28072010477 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 28072010478 active site 28072010479 motif I; other site 28072010480 motif II; other site 28072010481 na(+)/h(+) antiporter; Region: c_cpa1; TIGR00844 28072010482 TROVE domain; Region: TROVE; pfam05731 28072010483 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 28072010484 metal ion-dependent adhesion site (MIDAS); other site 28072010485 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 28072010486 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 28072010487 quinone interaction residues [chemical binding]; other site 28072010488 active site 28072010489 catalytic residues [active] 28072010490 FMN binding site [chemical binding]; other site 28072010491 substrate binding site [chemical binding]; other site 28072010492 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072010493 GAF domain; Region: GAF; pfam01590 28072010494 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072010495 GAF domain; Region: GAF; pfam01590 28072010496 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072010497 GAF domain; Region: GAF; pfam01590 28072010498 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 28072010499 NADH dehydrogenase subunit J; Provisional; Region: PRK12494 28072010500 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 28072010501 NADH dehydrogenase subunit K; Region: ndhK; CHL00023 28072010502 NADH dehydrogenase subunit 3; Region: ndhC; CHL00022 28072010503 Rubredoxin [Energy production and conversion]; Region: COG1773 28072010504 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 28072010505 iron binding site [ion binding]; other site 28072010506 Ycf48-like protein; Provisional; Region: PRK13684 28072010507 cytochrome b559 subunit alpha; Provisional; Region: psbE; PRK02557 28072010508 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; pfam00283 28072010509 Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit; Region: Cytochrom_B559a; pfam00284 28072010510 cytochrome b559 subunit beta; Provisional; Region: psbF; PRK02561 28072010511 photosystem II reaction center L; Provisional; Region: psbL; PRK00753 28072010512 PsbJ; Region: PsbJ; pfam01788 28072010513 photosystem I subunit VIII; Validated; Region: psaI; CHL00186 28072010514 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 28072010515 ligand binding site [chemical binding]; other site 28072010516 Tubulin like; Region: Tubulin_2; pfam13809 28072010517 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 28072010518 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072010519 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072010520 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072010521 DNA binding residues [nucleotide binding] 28072010522 Manganese-stabilising protein / photosystem II polypeptide; Region: MSP; pfam01716 28072010523 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072010524 AAA ATPase domain; Region: AAA_16; pfam13191 28072010525 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 28072010526 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072010527 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010528 structural tetrad; other site 28072010529 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010530 structural tetrad; other site 28072010531 WD40 repeats; Region: WD40; smart00320 28072010532 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 28072010533 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 28072010534 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 28072010535 cell division protein FtsZ; Validated; Region: PRK09330 28072010536 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 28072010537 nucleotide binding site [chemical binding]; other site 28072010538 SulA interaction site; other site 28072010539 glutathione synthetase; Provisional; Region: PRK05246 28072010540 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 28072010541 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 28072010542 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 28072010543 GSH binding site [chemical binding]; other site 28072010544 catalytic residues [active] 28072010545 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 28072010546 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 28072010547 HflX GTPase family; Region: HflX; cd01878 28072010548 G1 box; other site 28072010549 GTP/Mg2+ binding site [chemical binding]; other site 28072010550 Switch I region; other site 28072010551 G2 box; other site 28072010552 G3 box; other site 28072010553 Switch II region; other site 28072010554 G4 box; other site 28072010555 G5 box; other site 28072010556 GXWXG protein; Region: GXWXG; pfam14231 28072010557 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 28072010558 PemK-like protein; Region: PemK; pfam02452 28072010559 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 28072010560 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010561 binding surface 28072010562 TPR motif; other site 28072010563 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 28072010564 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010565 binding surface 28072010566 TPR motif; other site 28072010567 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010568 binding surface 28072010569 TPR motif; other site 28072010570 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 28072010571 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072010572 FeS/SAM binding site; other site 28072010573 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 28072010574 protein I interface; other site 28072010575 D2 interface; other site 28072010576 protein T interface; other site 28072010577 chlorophyll binding site; other site 28072010578 beta carotene binding site; other site 28072010579 pheophytin binding site; other site 28072010580 manganese-stabilizing polypeptide interface; other site 28072010581 CP43 interface; other site 28072010582 protein L interface; other site 28072010583 oxygen evolving complex binding site; other site 28072010584 bromide binding site; other site 28072010585 quinone binding site; other site 28072010586 Fe binding site [ion binding]; other site 28072010587 core light harvesting interface; other site 28072010588 cytochrome b559 alpha subunit interface; other site 28072010589 cytochrome c-550 interface; other site 28072010590 protein J interface; other site 28072010591 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 28072010592 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 28072010593 Tetramer interface [polypeptide binding]; other site 28072010594 active site 28072010595 FMN-binding site [chemical binding]; other site 28072010596 Uncharacterized conserved protein [Function unknown]; Region: COG4095 28072010597 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 28072010598 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 28072010599 B12 binding site [chemical binding]; other site 28072010600 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072010601 FeS/SAM binding site; other site 28072010602 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 28072010603 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 28072010604 putative hydrophobic ligand binding site [chemical binding]; other site 28072010605 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 28072010606 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 28072010607 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 28072010608 G-X-X-G motif; other site 28072010609 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 28072010610 RxxxH motif; other site 28072010611 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 28072010612 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 28072010613 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 28072010614 Bacterial PH domain; Region: DUF304; pfam03703 28072010615 ribonuclease P; Reviewed; Region: rnpA; PRK03031 28072010616 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 28072010617 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 28072010618 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 28072010619 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 28072010620 ligand binding site [chemical binding]; other site 28072010621 homodimer interface [polypeptide binding]; other site 28072010622 NAD(P) binding site [chemical binding]; other site 28072010623 trimer interface B [polypeptide binding]; other site 28072010624 trimer interface A [polypeptide binding]; other site 28072010625 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 28072010626 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 28072010627 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 28072010628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072010629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072010630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072010631 Walker A/P-loop; other site 28072010632 ATP binding site [chemical binding]; other site 28072010633 Q-loop/lid; other site 28072010634 ABC transporter signature motif; other site 28072010635 Walker B; other site 28072010636 D-loop; other site 28072010637 H-loop/switch region; other site 28072010638 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 28072010639 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 28072010640 PhoH-like protein; Region: PhoH; pfam02562 28072010641 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 28072010642 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 28072010643 KH domain; Region: KH_4; pfam13083 28072010644 G-X-X-G motif; other site 28072010645 ribosomal protein S16; Region: rps16; CHL00005 28072010646 signal recognition particle protein; Provisional; Region: PRK10867 28072010647 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 28072010648 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 28072010649 GTP binding site [chemical binding]; other site 28072010650 Signal peptide binding domain; Region: SRP_SPB; pfam02978 28072010651 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 28072010652 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 28072010653 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 28072010654 active site 28072010655 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 28072010656 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 28072010657 Phosphotransferase enzyme family; Region: APH; pfam01636 28072010658 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 28072010659 substrate binding site [chemical binding]; other site 28072010660 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072010661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 28072010662 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 28072010663 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 28072010664 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 28072010665 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072010666 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072010667 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072010668 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072010669 ligand binding site [chemical binding]; other site 28072010670 flexible hinge region; other site 28072010671 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072010672 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072010673 putative active site [active] 28072010674 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072010675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072010676 Walker A/P-loop; other site 28072010677 ATP binding site [chemical binding]; other site 28072010678 Q-loop/lid; other site 28072010679 ABC transporter signature motif; other site 28072010680 Walker B; other site 28072010681 D-loop; other site 28072010682 H-loop/switch region; other site 28072010683 Homeodomain-like domain; Region: HTH_23; pfam13384 28072010684 Winged helix-turn helix; Region: HTH_29; pfam13551 28072010685 Winged helix-turn helix; Region: HTH_33; pfam13592 28072010686 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 28072010687 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 28072010688 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072010689 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072010690 ligand binding site [chemical binding]; other site 28072010691 flexible hinge region; other site 28072010692 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072010693 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072010694 putative active site [active] 28072010695 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072010696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072010697 Walker A/P-loop; other site 28072010698 ATP binding site [chemical binding]; other site 28072010699 Q-loop/lid; other site 28072010700 ABC transporter signature motif; other site 28072010701 Walker B; other site 28072010702 D-loop; other site 28072010703 H-loop/switch region; other site 28072010704 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 28072010705 putative binding surface; other site 28072010706 active site 28072010707 Ehrlichia tandem repeat (Ehrlichia_rpt); Region: Ehrlichia_rpt; pfam09528 28072010708 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 28072010709 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 28072010710 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072010711 ATP binding site [chemical binding]; other site 28072010712 Mg2+ binding site [ion binding]; other site 28072010713 G-X-G motif; other site 28072010714 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 28072010715 Response regulator receiver domain; Region: Response_reg; pfam00072 28072010716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010717 active site 28072010718 phosphorylation site [posttranslational modification] 28072010719 intermolecular recognition site; other site 28072010720 dimerization interface [polypeptide binding]; other site 28072010721 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072010722 binding surface 28072010723 TPR motif; other site 28072010724 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072010725 dimerization interface [polypeptide binding]; other site 28072010726 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 28072010727 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 28072010728 dimer interface [polypeptide binding]; other site 28072010729 putative CheW interface [polypeptide binding]; other site 28072010730 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 28072010731 Response regulator receiver domain; Region: Response_reg; pfam00072 28072010732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010733 active site 28072010734 phosphorylation site [posttranslational modification] 28072010735 intermolecular recognition site; other site 28072010736 dimerization interface [polypeptide binding]; other site 28072010737 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 28072010738 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072010739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010740 active site 28072010741 phosphorylation site [posttranslational modification] 28072010742 intermolecular recognition site; other site 28072010743 dimerization interface [polypeptide binding]; other site 28072010744 phosphodiesterase; Provisional; Region: PRK12704 28072010745 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 28072010746 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 28072010747 Ligand Binding Site [chemical binding]; other site 28072010748 KGK domain; Region: KGK; pfam08872 28072010749 cytochrome c biogenesis protein; Region: ccsA; CHL00045 28072010750 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 28072010751 Protein of unknown function (DUF98); Region: DUF98; pfam01947 28072010752 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 28072010753 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 28072010754 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 28072010755 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 28072010756 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072010757 putative active site [active] 28072010758 Predicted integral membrane protein [Function unknown]; Region: COG0762 28072010759 Photosystem II reaction centre X protein (PsbX); Region: PsbX; pfam06596 28072010760 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 28072010761 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 28072010762 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 28072010763 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 28072010764 beta propeller repeat, Methanosarcina surface protein type; Region: beta_prop_Msarc; TIGR04275 28072010765 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12577 28072010766 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 28072010767 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 28072010768 CAAX protease self-immunity; Region: Abi; pfam02517 28072010769 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 28072010770 UbiA prenyltransferase family; Region: UbiA; pfam01040 28072010771 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 28072010772 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 28072010773 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 28072010774 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 28072010775 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 28072010776 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 28072010777 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 28072010778 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 28072010779 D-pathway; other site 28072010780 Putative ubiquinol binding site [chemical binding]; other site 28072010781 Low-spin heme (heme b) binding site [chemical binding]; other site 28072010782 Putative water exit pathway; other site 28072010783 Binuclear center (heme o3/CuB) [ion binding]; other site 28072010784 K-pathway; other site 28072010785 Putative proton exit pathway; other site 28072010786 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 28072010787 Subunit I/III interface [polypeptide binding]; other site 28072010788 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072010789 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072010790 structural tetrad; other site 28072010791 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 28072010792 light-harvesting-like protein 3; Provisional; Region: PLN00014 28072010793 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 28072010794 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 28072010795 hexamer interface [polypeptide binding]; other site 28072010796 ligand binding site [chemical binding]; other site 28072010797 putative active site [active] 28072010798 NAD(P) binding site [chemical binding]; other site 28072010799 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072010800 cofactor binding site; other site 28072010801 DNA binding site [nucleotide binding] 28072010802 substrate interaction site [chemical binding]; other site 28072010803 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072010804 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 28072010805 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072010806 non-specific DNA binding site [nucleotide binding]; other site 28072010807 salt bridge; other site 28072010808 sequence-specific DNA binding site [nucleotide binding]; other site 28072010809 cyanate hydratase; Validated; Region: PRK02866 28072010810 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 28072010811 oligomer interface [polypeptide binding]; other site 28072010812 active site 28072010813 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 28072010814 DNA methylase; Region: N6_N4_Mtase; pfam01555 28072010815 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 28072010816 active site 28072010817 catalytic triad [active] 28072010818 oxyanion hole [active] 28072010819 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 28072010820 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 28072010821 Ligand Binding Site [chemical binding]; other site 28072010822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072010823 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072010824 dimer interface [polypeptide binding]; other site 28072010825 phosphorylation site [posttranslational modification] 28072010826 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072010827 ATP binding site [chemical binding]; other site 28072010828 Mg2+ binding site [ion binding]; other site 28072010829 G-X-G motif; other site 28072010830 Response regulator receiver domain; Region: Response_reg; pfam00072 28072010831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010832 active site 28072010833 phosphorylation site [posttranslational modification] 28072010834 intermolecular recognition site; other site 28072010835 dimerization interface [polypeptide binding]; other site 28072010836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 28072010837 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 28072010838 TM-ABC transporter signature motif; other site 28072010839 PsaX family; Region: PsaX; pfam08078 28072010840 lipoyl synthase; Provisional; Region: PRK12928 28072010841 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072010842 FeS/SAM binding site; other site 28072010843 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072010844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010845 active site 28072010846 phosphorylation site [posttranslational modification] 28072010847 intermolecular recognition site; other site 28072010848 dimerization interface [polypeptide binding]; other site 28072010849 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 28072010850 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 28072010851 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 28072010852 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07428 28072010853 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 28072010854 dimerization interface [polypeptide binding]; other site 28072010855 active site 28072010856 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 28072010857 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072010858 Walker A motif; other site 28072010859 ATP binding site [chemical binding]; other site 28072010860 Walker B motif; other site 28072010861 negative regulator GrlR; Provisional; Region: PRK14051 28072010862 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 28072010863 RxxxH motif; other site 28072010864 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 28072010865 4Fe-4S binding domain; Region: Fer4; pfam00037 28072010866 Iron-Sulfur binding protein C terminal; Region: LdpA_C; pfam12617 28072010867 Response regulator receiver domain; Region: Response_reg; pfam00072 28072010868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010869 active site 28072010870 phosphorylation site [posttranslational modification] 28072010871 intermolecular recognition site; other site 28072010872 dimerization interface [polypeptide binding]; other site 28072010873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072010874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072010875 metal binding site [ion binding]; metal-binding site 28072010876 active site 28072010877 I-site; other site 28072010878 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 28072010879 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072010880 dimer interface [polypeptide binding]; other site 28072010881 phosphorylation site [posttranslational modification] 28072010882 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072010883 ATP binding site [chemical binding]; other site 28072010884 Mg2+ binding site [ion binding]; other site 28072010885 G-X-G motif; other site 28072010886 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072010887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072010888 active site 28072010889 phosphorylation site [posttranslational modification] 28072010890 intermolecular recognition site; other site 28072010891 dimerization interface [polypeptide binding]; other site 28072010892 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 28072010893 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 28072010894 Catalytic site [active] 28072010895 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 28072010896 dihydroorotase; Provisional; Region: PRK07575 28072010897 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072010898 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 28072010899 active site 28072010900 Patatin [General function prediction only]; Region: COG3621 28072010901 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 28072010902 active site 28072010903 nucleophile elbow; other site 28072010904 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 28072010905 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 28072010906 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 28072010907 phosphate binding site [ion binding]; other site 28072010908 putative substrate binding pocket [chemical binding]; other site 28072010909 dimer interface [polypeptide binding]; other site 28072010910 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 28072010911 active site 28072010912 putative DNA-binding cleft [nucleotide binding]; other site 28072010913 dimer interface [polypeptide binding]; other site 28072010914 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 28072010915 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 28072010916 putative ligand binding site [chemical binding]; other site 28072010917 putative NAD binding site [chemical binding]; other site 28072010918 catalytic site [active] 28072010919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072010920 Coenzyme A binding pocket [chemical binding]; other site 28072010921 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072010922 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072010923 putative active site [active] 28072010924 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072010925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072010926 Walker A/P-loop; other site 28072010927 ATP binding site [chemical binding]; other site 28072010928 Q-loop/lid; other site 28072010929 ABC transporter signature motif; other site 28072010930 Walker B; other site 28072010931 D-loop; other site 28072010932 H-loop/switch region; other site 28072010933 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072010934 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 28072010935 homotrimer interaction site [polypeptide binding]; other site 28072010936 putative active site [active] 28072010937 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 28072010938 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02645 28072010939 ATP-NAD kinase; Region: NAD_kinase; pfam01513 28072010940 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 28072010941 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 28072010942 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 28072010943 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 28072010944 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 28072010945 NADH dehydrogenase; Region: NADHdh; cl00469 28072010946 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 28072010947 citrate synthase; Provisional; Region: PRK14036 28072010948 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_1; cd06112 28072010949 dimer interface [polypeptide binding]; other site 28072010950 active site 28072010951 citrylCoA binding site [chemical binding]; other site 28072010952 oxalacetate/citrate binding site [chemical binding]; other site 28072010953 coenzyme A binding site [chemical binding]; other site 28072010954 catalytic triad [active] 28072010955 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 28072010956 catalytic core [active] 28072010957 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 28072010958 putative active site [active] 28072010959 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 28072010960 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 28072010961 DHH family; Region: DHH; pfam01368 28072010962 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 28072010963 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072010964 active site 28072010965 alanine racemase; Reviewed; Region: alr; PRK00053 28072010966 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 28072010967 active site 28072010968 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 28072010969 dimer interface [polypeptide binding]; other site 28072010970 substrate binding site [chemical binding]; other site 28072010971 catalytic residues [active] 28072010972 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 28072010973 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 28072010974 putative active site [active] 28072010975 catalytic triad [active] 28072010976 putative dimer interface [polypeptide binding]; other site 28072010977 DNA gyrase subunit A; Validated; Region: PRK05560 28072010978 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 28072010979 CAP-like domain; other site 28072010980 active site 28072010981 primary dimer interface [polypeptide binding]; other site 28072010982 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072010983 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072010984 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072010985 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072010986 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072010987 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 28072010988 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 28072010989 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 28072010990 active site 28072010991 Zn binding site [ion binding]; other site 28072010992 tellurite resistance protein terB; Region: terB; cd07176 28072010993 putative metal binding site [ion binding]; other site 28072010994 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 28072010995 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 28072010996 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 28072010997 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 28072010998 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072010999 PAS fold; Region: PAS_3; pfam08447 28072011000 putative active site [active] 28072011001 heme pocket [chemical binding]; other site 28072011002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072011003 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072011004 dimer interface [polypeptide binding]; other site 28072011005 phosphorylation site [posttranslational modification] 28072011006 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072011007 ATP binding site [chemical binding]; other site 28072011008 Mg2+ binding site [ion binding]; other site 28072011009 G-X-G motif; other site 28072011010 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072011011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072011012 active site 28072011013 phosphorylation site [posttranslational modification] 28072011014 intermolecular recognition site; other site 28072011015 dimerization interface [polypeptide binding]; other site 28072011016 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 28072011017 active site 28072011018 hydrophilic channel; other site 28072011019 dimerization interface [polypeptide binding]; other site 28072011020 catalytic residues [active] 28072011021 active site lid [active] 28072011022 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 28072011023 Protein of unknown function (DUF2488); Region: Ycf54; pfam10674 28072011024 Divergent PAP2 family; Region: DUF212; pfam02681 28072011025 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 28072011026 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 28072011027 substrate binding pocket [chemical binding]; other site 28072011028 chain length determination region; other site 28072011029 substrate-Mg2+ binding site; other site 28072011030 catalytic residues [active] 28072011031 aspartate-rich region 1; other site 28072011032 active site lid residues [active] 28072011033 aspartate-rich region 2; other site 28072011034 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14186 28072011035 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 28072011036 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 28072011037 homodimer interface [polypeptide binding]; other site 28072011038 NADP binding site [chemical binding]; other site 28072011039 substrate binding site [chemical binding]; other site 28072011040 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 28072011041 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 28072011042 nudix motif; other site 28072011043 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072011044 Domain of unknown function DUF20; Region: UPF0118; pfam01594 28072011045 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 28072011046 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 28072011047 putative active site [active] 28072011048 putative metal binding site [ion binding]; other site 28072011049 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072011050 AAA ATPase domain; Region: AAA_15; pfam13175 28072011051 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011052 Walker A/P-loop; other site 28072011053 ATP binding site [chemical binding]; other site 28072011054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011055 ABC transporter signature motif; other site 28072011056 Walker B; other site 28072011057 D-loop; other site 28072011058 H-loop/switch region; other site 28072011059 Predicted ATPase [General function prediction only]; Region: COG4637 28072011060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011061 Walker A/P-loop; other site 28072011062 ATP binding site [chemical binding]; other site 28072011063 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 28072011064 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 28072011065 MutS domain I; Region: MutS_I; pfam01624 28072011066 MutS domain II; Region: MutS_II; pfam05188 28072011067 MutS domain III; Region: MutS_III; pfam05192 28072011068 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 28072011069 Walker A/P-loop; other site 28072011070 ATP binding site [chemical binding]; other site 28072011071 Q-loop/lid; other site 28072011072 ABC transporter signature motif; other site 28072011073 Walker B; other site 28072011074 D-loop; other site 28072011075 H-loop/switch region; other site 28072011076 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072011077 putative active site [active] 28072011078 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072011079 S-adenosylmethionine binding site [chemical binding]; other site 28072011080 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011081 binding surface 28072011082 TPR repeat; Region: TPR_11; pfam13414 28072011083 TPR motif; other site 28072011084 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011085 binding surface 28072011086 TPR motif; other site 28072011087 TPR repeat; Region: TPR_11; pfam13414 28072011088 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011089 binding surface 28072011090 TPR motif; other site 28072011091 TPR repeat; Region: TPR_11; pfam13414 28072011092 Uncharacterized ACR (DUF711); Region: DUF711; pfam05167 28072011093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4340 28072011094 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072011095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 28072011096 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 28072011097 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 28072011098 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 28072011099 ATP-binding site [chemical binding]; other site 28072011100 Gluconate-6-phosphate binding site [chemical binding]; other site 28072011101 Shikimate kinase; Region: SKI; pfam01202 28072011102 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 28072011103 HicB family; Region: HicB; pfam05534 28072011104 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 28072011105 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 28072011106 putative substrate binding site [chemical binding]; other site 28072011107 putative ATP binding site [chemical binding]; other site 28072011108 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072011109 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072011110 DNA binding residues [nucleotide binding] 28072011111 dimerization interface [polypeptide binding]; other site 28072011112 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072011113 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 28072011114 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 28072011115 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 28072011116 Predicted transcriptional regulators [Transcription]; Region: COG1733 28072011117 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072011118 dimerization interface [polypeptide binding]; other site 28072011119 putative DNA binding site [nucleotide binding]; other site 28072011120 putative Zn2+ binding site [ion binding]; other site 28072011121 VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_ORF176_type; cd01457 28072011122 metal ion-dependent adhesion site (MIDAS); other site 28072011123 VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_ORF176_type; cd01457 28072011124 metal ion-dependent adhesion site (MIDAS); other site 28072011125 Predicted membrane protein [Function unknown]; Region: COG4244 28072011126 Predicted membrane protein [Function unknown]; Region: COG4244 28072011127 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 28072011128 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 28072011129 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 28072011130 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 28072011131 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 28072011132 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 28072011133 Subunit I/III interface [polypeptide binding]; other site 28072011134 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 28072011135 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 28072011136 FMN binding site [chemical binding]; other site 28072011137 active site 28072011138 catalytic residues [active] 28072011139 substrate binding site [chemical binding]; other site 28072011140 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 28072011141 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072011142 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 28072011143 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 28072011144 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 28072011145 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 28072011146 nucleotide binding site [chemical binding]; other site 28072011147 NEF interaction site [polypeptide binding]; other site 28072011148 SBD interface [polypeptide binding]; other site 28072011149 Restriction endonuclease BsobI; Region: Endonuc-BsobI; pfam09194 28072011150 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 28072011151 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 28072011152 GUN4-like; Region: GUN4; pfam05419 28072011153 quinolinate synthetase; Provisional; Region: PRK09375 28072011154 Myxococcus xanthus DevT and related proteins, metallophosphatase domain; Region: MPP_DevT; cd07397 28072011155 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 28072011156 putative active site [active] 28072011157 putative metal binding site [ion binding]; other site 28072011158 AAA domain; Region: AAA_21; pfam13304 28072011159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011160 Walker B; other site 28072011161 D-loop; other site 28072011162 H-loop/switch region; other site 28072011163 Predicted kinase [General function prediction only]; Region: COG4240 28072011164 active site 28072011165 Protein of unknown function (DUF565); Region: DUF565; pfam04483 28072011166 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 28072011167 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072011168 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 28072011169 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072011170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072011171 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072011172 dimer interface [polypeptide binding]; other site 28072011173 phosphorylation site [posttranslational modification] 28072011174 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072011175 ATP binding site [chemical binding]; other site 28072011176 Mg2+ binding site [ion binding]; other site 28072011177 G-X-G motif; other site 28072011178 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072011179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072011180 active site 28072011181 phosphorylation site [posttranslational modification] 28072011182 intermolecular recognition site; other site 28072011183 dimerization interface [polypeptide binding]; other site 28072011184 KaiA domain; Region: KaiA; pfam07688 28072011185 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 28072011186 tetramer interface [polypeptide binding]; other site 28072011187 dimer interface [polypeptide binding]; other site 28072011188 circadian clock protein KaiC; Region: circ_KaiC; TIGR02655 28072011189 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 28072011190 Walker A motif; other site 28072011191 ATP binding site [chemical binding]; other site 28072011192 Walker B motif; other site 28072011193 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 28072011194 ATP binding site [chemical binding]; other site 28072011195 Walker B motif; other site 28072011196 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 28072011197 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 28072011198 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 28072011199 RNA binding surface [nucleotide binding]; other site 28072011200 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 28072011201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072011202 NAD(P) binding site [chemical binding]; other site 28072011203 active site 28072011204 non-specific DNA binding site [nucleotide binding]; other site 28072011205 salt bridge; other site 28072011206 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 28072011207 sequence-specific DNA binding site [nucleotide binding]; other site 28072011208 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 28072011209 Methyltransferase domain; Region: Methyltransf_26; pfam13659 28072011210 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 28072011211 Fic family protein [Function unknown]; Region: COG3177 28072011212 Homeodomain-like domain; Region: HTH_23; cl17451 28072011213 Winged helix-turn helix; Region: HTH_29; pfam13551 28072011214 Homeodomain-like domain; Region: HTH_32; pfam13565 28072011215 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072011216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072011217 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 28072011218 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 28072011219 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 28072011220 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 28072011221 active site residue [active] 28072011222 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 28072011223 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 28072011224 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072011225 dimerization interface [polypeptide binding]; other site 28072011226 putative DNA binding site [nucleotide binding]; other site 28072011227 putative Zn2+ binding site [ion binding]; other site 28072011228 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 28072011229 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 28072011230 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 28072011231 FeS/SAM binding site; other site 28072011232 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 28072011233 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 28072011234 active site 28072011235 catalytic residues [active] 28072011236 metal binding site [ion binding]; metal-binding site 28072011237 methionine sulfoxide reductase B; Provisional; Region: PRK00222 28072011238 SelR domain; Region: SelR; pfam01641 28072011239 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 28072011240 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 28072011241 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 28072011242 putative active site [active] 28072011243 putative dimer interface [polypeptide binding]; other site 28072011244 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072011245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072011246 active site 28072011247 phosphorylation site [posttranslational modification] 28072011248 intermolecular recognition site; other site 28072011249 dimerization interface [polypeptide binding]; other site 28072011250 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072011251 PAS domain; Region: PAS_9; pfam13426 28072011252 putative active site [active] 28072011253 heme pocket [chemical binding]; other site 28072011254 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072011255 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072011256 putative active site [active] 28072011257 heme pocket [chemical binding]; other site 28072011258 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072011259 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072011260 putative active site [active] 28072011261 heme pocket [chemical binding]; other site 28072011262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072011263 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072011264 dimer interface [polypeptide binding]; other site 28072011265 phosphorylation site [posttranslational modification] 28072011266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072011267 ATP binding site [chemical binding]; other site 28072011268 Mg2+ binding site [ion binding]; other site 28072011269 G-X-G motif; other site 28072011270 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072011271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072011272 active site 28072011273 phosphorylation site [posttranslational modification] 28072011274 intermolecular recognition site; other site 28072011275 dimerization interface [polypeptide binding]; other site 28072011276 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 28072011277 NADH(P)-binding; Region: NAD_binding_10; pfam13460 28072011278 NAD(P) binding site [chemical binding]; other site 28072011279 putative active site [active] 28072011280 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072011281 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072011282 active site 28072011283 ATP binding site [chemical binding]; other site 28072011284 substrate binding site [chemical binding]; other site 28072011285 activation loop (A-loop); other site 28072011286 GUN4-like; Region: GUN4; pfam05419 28072011287 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072011288 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072011289 phosphopeptide binding site; other site 28072011290 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072011291 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072011292 active site 28072011293 ATP binding site [chemical binding]; other site 28072011294 substrate binding site [chemical binding]; other site 28072011295 activation loop (A-loop); other site 28072011296 metabolite-proton symporter; Region: 2A0106; TIGR00883 28072011297 hypothetical protein; Validated; Region: PRK07411 28072011298 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 28072011299 ATP binding site [chemical binding]; other site 28072011300 substrate interface [chemical binding]; other site 28072011301 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 28072011302 active site residue [active] 28072011303 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 28072011304 MPN+ (JAMM) motif; other site 28072011305 Zinc-binding site [ion binding]; other site 28072011306 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 28072011307 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072011308 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072011309 FeoA domain; Region: FeoA; pfam04023 28072011310 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 28072011311 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 28072011312 G1 box; other site 28072011313 GTP/Mg2+ binding site [chemical binding]; other site 28072011314 Switch I region; other site 28072011315 G2 box; other site 28072011316 G3 box; other site 28072011317 Switch II region; other site 28072011318 G4 box; other site 28072011319 G5 box; other site 28072011320 Nucleoside recognition; Region: Gate; pfam07670 28072011321 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 28072011322 Nucleoside recognition; Region: Gate; pfam07670 28072011323 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 28072011324 catalytic triad [active] 28072011325 conserved cis-peptide bond; other site 28072011326 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072011327 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 28072011328 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072011329 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072011330 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 28072011331 protein binding site [polypeptide binding]; other site 28072011332 Protein of unknown function (DUF760); Region: DUF760; pfam05542 28072011333 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 28072011334 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 28072011335 substrate binding site; other site 28072011336 dimer interface; other site 28072011337 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 28072011338 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 28072011339 putative active site [active] 28072011340 Domain of unknown function (DUF1817); Region: DUF1817; pfam08847 28072011341 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072011342 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072011343 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072011344 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072011345 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072011346 DevC protein; Region: devC; TIGR01185 28072011347 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072011348 FtsX-like permease family; Region: FtsX; pfam02687 28072011349 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072011350 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072011351 Walker A/P-loop; other site 28072011352 ATP binding site [chemical binding]; other site 28072011353 Q-loop/lid; other site 28072011354 ABC transporter signature motif; other site 28072011355 Walker B; other site 28072011356 D-loop; other site 28072011357 H-loop/switch region; other site 28072011358 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011359 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011360 TPR motif; other site 28072011361 binding surface 28072011362 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011363 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011364 binding surface 28072011365 TPR motif; other site 28072011366 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011367 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011368 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011369 binding surface 28072011370 TPR motif; other site 28072011371 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011372 CHAT domain; Region: CHAT; pfam12770 28072011373 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 28072011374 hypothetical protein; Provisional; Region: PRK02509 28072011375 Uncharacterized conserved protein [Function unknown]; Region: COG1615 28072011376 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072011377 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072011378 ligand binding site [chemical binding]; other site 28072011379 flexible hinge region; other site 28072011380 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 28072011381 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 28072011382 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 28072011383 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 28072011384 metal binding site [ion binding]; metal-binding site 28072011385 dimer interface [polypeptide binding]; other site 28072011386 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 28072011387 AAA domain; Region: AAA_26; pfam13500 28072011388 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072011389 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072011390 active site 28072011391 ATP binding site [chemical binding]; other site 28072011392 substrate binding site [chemical binding]; other site 28072011393 activation loop (A-loop); other site 28072011394 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02812 28072011395 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 28072011396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072011397 active site 28072011398 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 28072011399 HD domain; Region: HD_4; pfam13328 28072011400 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 28072011401 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 28072011402 G1 box; other site 28072011403 putative GEF interaction site [polypeptide binding]; other site 28072011404 GTP/Mg2+ binding site [chemical binding]; other site 28072011405 Switch I region; other site 28072011406 G2 box; other site 28072011407 G3 box; other site 28072011408 Switch II region; other site 28072011409 G4 box; other site 28072011410 G5 box; other site 28072011411 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 28072011412 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 28072011413 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 28072011414 toxin interface [polypeptide binding]; other site 28072011415 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 28072011416 Zn binding site [ion binding]; other site 28072011417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 28072011418 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 28072011419 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 28072011420 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072011421 putative active site [active] 28072011422 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 28072011423 Protein of unknown function DUF58; Region: DUF58; pfam01882 28072011424 ferredoxin thioreductase subunit beta; Validated; Region: ftrB; CHL00165 28072011425 Domain of unknown function (DUF309); Region: DUF309; pfam03745 28072011426 OstA-like protein; Region: OstA; pfam03968 28072011427 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 28072011428 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 28072011429 Walker A/P-loop; other site 28072011430 ATP binding site [chemical binding]; other site 28072011431 Q-loop/lid; other site 28072011432 ABC transporter signature motif; other site 28072011433 Walker B; other site 28072011434 D-loop; other site 28072011435 H-loop/switch region; other site 28072011436 Predicted permeases [General function prediction only]; Region: COG0795 28072011437 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 28072011438 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 28072011439 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 28072011440 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 28072011441 ligand binding site; other site 28072011442 oligomer interface; other site 28072011443 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 28072011444 dimer interface [polypeptide binding]; other site 28072011445 N-terminal domain interface [polypeptide binding]; other site 28072011446 sulfate 1 binding site; other site 28072011447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 28072011448 AAA domain; Region: AAA_33; pfam13671 28072011449 chaperone protein DnaJ; Provisional; Region: PRK14299 28072011450 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072011451 HSP70 interaction site [polypeptide binding]; other site 28072011452 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 28072011453 substrate binding site [polypeptide binding]; other site 28072011454 dimer interface [polypeptide binding]; other site 28072011455 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 28072011456 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 28072011457 putative catalytic residues [active] 28072011458 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 28072011459 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 28072011460 dimer interface [polypeptide binding]; other site 28072011461 decamer (pentamer of dimers) interface [polypeptide binding]; other site 28072011462 catalytic triad [active] 28072011463 peroxidatic and resolving cysteines [active] 28072011464 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 28072011465 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 28072011466 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 28072011467 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 28072011468 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 28072011469 putative active site [active] 28072011470 putative metal binding site [ion binding]; other site 28072011471 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 28072011472 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 28072011473 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 28072011474 inhibitor-cofactor binding pocket; inhibition site 28072011475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072011476 catalytic residue [active] 28072011477 Protein of unknown function (DUF561); Region: DUF561; pfam04481 28072011478 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 28072011479 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072011480 substrate binding pocket [chemical binding]; other site 28072011481 membrane-bound complex binding site; other site 28072011482 hinge residues; other site 28072011483 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072011484 dimerization interface [polypeptide binding]; other site 28072011485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072011486 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072011487 dimer interface [polypeptide binding]; other site 28072011488 phosphorylation site [posttranslational modification] 28072011489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072011490 ATP binding site [chemical binding]; other site 28072011491 Mg2+ binding site [ion binding]; other site 28072011492 G-X-G motif; other site 28072011493 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 28072011494 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072011495 S-adenosylmethionine binding site [chemical binding]; other site 28072011496 ubiquinone biosynthesis methyltransferase; Region: PLN02232 28072011497 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011498 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011499 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011500 binding surface 28072011501 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011502 TPR motif; other site 28072011503 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072011505 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072011506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072011507 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072011508 hypothetical protein; Reviewed; Region: PRK12275 28072011509 four helix bundle protein; Region: TIGR02436 28072011510 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 28072011511 Fe-S cluster binding site [ion binding]; other site 28072011512 active site 28072011513 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 28072011514 active site 28072011515 dimer interface [polypeptide binding]; other site 28072011516 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 28072011517 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 28072011518 active site 28072011519 HIGH motif; other site 28072011520 dimer interface [polypeptide binding]; other site 28072011521 KMSKS motif; other site 28072011522 Transglycosylase; Region: Transgly; pfam00912 28072011523 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 28072011524 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 28072011525 Domain of unknown function (DUF1825); Region: DUF1825; pfam08855 28072011526 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072011527 HSP70 interaction site [polypeptide binding]; other site 28072011528 TPR repeat; Region: TPR_11; pfam13414 28072011529 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011530 binding surface 28072011531 TPR motif; other site 28072011532 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 28072011533 Short C-terminal domain; Region: SHOCT; pfam09851 28072011534 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 28072011535 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 28072011536 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 28072011537 Catalytic site [active] 28072011538 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 28072011539 ferredoxin-sulfite reductase; Region: sir; TIGR02042 28072011540 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 28072011541 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 28072011542 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 28072011543 Taspase1_like domains; Taspase1 catalyzes the cleavage of the mix lineage leukemia (MLL) nuclear protein and transcription factor TFIIA. Taspase1 is a threonine aspartase, a member of the Ntn hydrolase superfamily and the type 2 asparaginase family. A...; Region: Taspase1_like; cd04514 28072011544 active site 28072011545 dimer interface [polypeptide binding]; other site 28072011546 catalytic nucleophile [active] 28072011547 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 28072011548 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 28072011549 Substrate binding site; other site 28072011550 Mg++ binding site; other site 28072011551 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 28072011552 active site 28072011553 substrate binding site [chemical binding]; other site 28072011554 CoA binding site [chemical binding]; other site 28072011555 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 28072011556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072011557 active site 28072011558 phosphorylation site [posttranslational modification] 28072011559 intermolecular recognition site; other site 28072011560 dimerization interface [polypeptide binding]; other site 28072011561 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 28072011562 Zn2+ binding site [ion binding]; other site 28072011563 Mg2+ binding site [ion binding]; other site 28072011564 Uncharacterized conserved protein [Function unknown]; Region: COG4121 28072011565 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 28072011566 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 28072011567 active site residue [active] 28072011568 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 28072011569 active site residue [active] 28072011570 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 28072011571 FecR protein; Region: FecR; pfam04773 28072011572 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 28072011573 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 28072011574 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 28072011575 CoA binding domain; Region: CoA_binding; smart00881 28072011576 CoA-ligase; Region: Ligase_CoA; pfam00549 28072011577 Peptidase M14 Aspartoacylase (ASPA) subfamily; Region: M14_ASPA; cd06909 28072011578 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 28072011579 active site 28072011580 Zn binding site [ion binding]; other site 28072011581 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 28072011582 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072011583 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 28072011584 substrate binding site [chemical binding]; other site 28072011585 active site 28072011586 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 28072011587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072011588 NAD(P) binding site [chemical binding]; other site 28072011589 active site 28072011590 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 28072011591 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072011592 active site 28072011593 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 28072011594 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072011595 putative substrate translocation pore; other site 28072011596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 28072011597 HEAT repeats; Region: HEAT_2; pfam13646 28072011598 HEAT repeats; Region: HEAT_2; pfam13646 28072011599 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 28072011600 CpeS-like protein; Region: CpeS; pfam09367 28072011601 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 28072011602 nudix motif; other site 28072011603 AAA domain; Region: AAA_11; pfam13086 28072011604 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 28072011605 AAA domain; Region: AAA_12; pfam13087 28072011606 RAP domain; Region: RAP; pfam08373 28072011607 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 28072011608 active site 28072011609 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 28072011610 diiron binding motif [ion binding]; other site 28072011611 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 28072011612 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 28072011613 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 28072011614 heme binding pocket [chemical binding]; other site 28072011615 heme ligand [chemical binding]; other site 28072011616 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 28072011617 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072011618 FeS/SAM binding site; other site 28072011619 HemN C-terminal domain; Region: HemN_C; pfam06969 28072011620 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 28072011621 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072011622 S-adenosylmethionine binding site [chemical binding]; other site 28072011623 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 28072011624 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 28072011625 ligand binding site [chemical binding]; other site 28072011626 NAD binding site [chemical binding]; other site 28072011627 dimerization interface [polypeptide binding]; other site 28072011628 catalytic site [active] 28072011629 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 28072011630 putative L-serine binding site [chemical binding]; other site 28072011631 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 28072011632 Peptidase family M50; Region: Peptidase_M50; pfam02163 28072011633 active site 28072011634 putative substrate binding region [chemical binding]; other site 28072011635 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 28072011636 carboxyl-terminal processing protease; Provisional; Region: PLN00049 28072011637 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 28072011638 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 28072011639 protein binding site [polypeptide binding]; other site 28072011640 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 28072011641 Catalytic dyad [active] 28072011642 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 28072011643 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 28072011644 Qi binding site; other site 28072011645 intrachain domain interface; other site 28072011646 interchain domain interface [polypeptide binding]; other site 28072011647 heme bH binding site [chemical binding]; other site 28072011648 heme bL binding site [chemical binding]; other site 28072011649 Qo binding site; other site 28072011650 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 28072011651 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 28072011652 interchain domain interface [polypeptide binding]; other site 28072011653 intrachain domain interface; other site 28072011654 Qi binding site; other site 28072011655 Qo binding site; other site 28072011656 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 28072011657 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 28072011658 ATP binding site [chemical binding]; other site 28072011659 Mg2+ binding site [ion binding]; other site 28072011660 G-X-G motif; other site 28072011661 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 28072011662 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 28072011663 NADP-binding site; other site 28072011664 homotetramer interface [polypeptide binding]; other site 28072011665 substrate binding site [chemical binding]; other site 28072011666 homodimer interface [polypeptide binding]; other site 28072011667 active site 28072011668 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072011669 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072011670 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 28072011671 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 28072011672 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 28072011673 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 28072011674 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 28072011675 active site residue [active] 28072011676 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 28072011677 active site residue [active] 28072011678 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 28072011679 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072011680 catalytic triad [active] 28072011681 Protein of unknown function (DUF3148); Region: DUF3148; pfam11347 28072011682 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 28072011683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 28072011684 Histidine kinase; Region: HisKA_3; pfam07730 28072011685 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072011686 ATP binding site [chemical binding]; other site 28072011687 Mg2+ binding site [ion binding]; other site 28072011688 G-X-G motif; other site 28072011689 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072011690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072011691 active site 28072011692 phosphorylation site [posttranslational modification] 28072011693 intermolecular recognition site; other site 28072011694 dimerization interface [polypeptide binding]; other site 28072011695 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072011696 DNA binding residues [nucleotide binding] 28072011697 dimerization interface [polypeptide binding]; other site 28072011698 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 28072011699 nucleoside/Zn binding site; other site 28072011700 dimer interface [polypeptide binding]; other site 28072011701 catalytic motif [active] 28072011702 Ion channel; Region: Ion_trans_2; pfam07885 28072011703 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 28072011704 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 28072011705 Caspase domain; Region: Peptidase_C14; pfam00656 28072011706 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 28072011707 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 28072011708 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 28072011709 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011710 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072011711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 28072011712 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072011713 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072011714 putative active site [active] 28072011715 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072011716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011717 Walker A/P-loop; other site 28072011718 ATP binding site [chemical binding]; other site 28072011719 Q-loop/lid; other site 28072011720 ABC transporter signature motif; other site 28072011721 Walker B; other site 28072011722 D-loop; other site 28072011723 H-loop/switch region; other site 28072011724 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 28072011725 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072011726 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072011727 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072011728 haemagglutination activity domain; Region: Haemagg_act; pfam05860 28072011729 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072011730 CHAT domain; Region: CHAT; cl17868 28072011731 CHAT domain; Region: CHAT; cl17868 28072011732 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072011733 CHASE2 domain; Region: CHASE2; pfam05226 28072011734 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 28072011735 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072011736 DNA binding residues [nucleotide binding] 28072011737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072011738 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 28072011739 Probable transposase; Region: OrfB_IS605; pfam01385 28072011740 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072011741 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072011742 active site 28072011743 ATP binding site [chemical binding]; other site 28072011744 substrate binding site [chemical binding]; other site 28072011745 activation loop (A-loop); other site 28072011746 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 28072011747 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072011748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072011749 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 28072011750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072011751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 28072011752 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 28072011753 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072011754 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 28072011755 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072011756 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 28072011757 DevC protein; Region: devC; TIGR01185 28072011758 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072011759 FtsX-like permease family; Region: FtsX; pfam02687 28072011760 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 28072011761 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072011762 Walker A/P-loop; other site 28072011763 ATP binding site [chemical binding]; other site 28072011764 Q-loop/lid; other site 28072011765 ABC transporter signature motif; other site 28072011766 Walker B; other site 28072011767 D-loop; other site 28072011768 H-loop/switch region; other site 28072011769 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 28072011770 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072011771 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 28072011772 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072011773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 28072011774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 28072011775 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 28072011776 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 28072011777 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 28072011778 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 28072011779 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 28072011780 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072011781 Walker A motif; other site 28072011782 ATP binding site [chemical binding]; other site 28072011783 Walker B motif; other site 28072011784 arginine finger; other site 28072011785 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 28072011786 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 28072011787 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 28072011788 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072011789 putative active site [active] 28072011790 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072011791 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 28072011792 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 28072011793 nudix motif; other site 28072011794 thymidylate kinase; Validated; Region: tmk; PRK00698 28072011795 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 28072011796 TMP-binding site; other site 28072011797 ATP-binding site [chemical binding]; other site 28072011798 DNA polymerase III subunit delta'; Validated; Region: PRK07399 28072011799 DNA polymerase III subunit delta'; Validated; Region: PRK08485 28072011800 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 28072011801 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 28072011802 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 28072011803 active site 28072011804 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072011805 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072011806 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072011807 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072011808 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072011809 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072011810 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072011811 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 28072011812 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 28072011813 active site 28072011814 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 28072011815 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 28072011816 active site 28072011817 (T/H)XGH motif; other site 28072011818 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 28072011819 nudix motif; other site 28072011820 NAD synthetase; Provisional; Region: PRK13981 28072011821 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 28072011822 multimer interface [polypeptide binding]; other site 28072011823 active site 28072011824 catalytic triad [active] 28072011825 protein interface 1 [polypeptide binding]; other site 28072011826 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 28072011827 homodimer interface [polypeptide binding]; other site 28072011828 NAD binding pocket [chemical binding]; other site 28072011829 ATP binding pocket [chemical binding]; other site 28072011830 Mg binding site [ion binding]; other site 28072011831 active-site loop [active] 28072011832 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 28072011833 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 28072011834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011835 Walker A/P-loop; other site 28072011836 ATP binding site [chemical binding]; other site 28072011837 Q-loop/lid; other site 28072011838 ABC transporter signature motif; other site 28072011839 Walker B; other site 28072011840 D-loop; other site 28072011841 H-loop/switch region; other site 28072011842 TPR repeat; Region: TPR_11; pfam13414 28072011843 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011844 TPR motif; other site 28072011845 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072011846 binding surface 28072011847 TPR motif; other site 28072011848 TPR repeat; Region: TPR_11; pfam13414 28072011849 TPR repeat; Region: TPR_11; pfam13414 28072011850 Uncharacterized conserved protein [Function unknown]; Region: COG0393 28072011851 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072011852 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 28072011853 putative DNA binding site [nucleotide binding]; other site 28072011854 putative Zn2+ binding site [ion binding]; other site 28072011855 Transcriptional regulator PadR-like family; Region: PadR; cl17335 28072011856 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 28072011857 putative ABC transporter; Region: ycf24; CHL00085 28072011858 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 28072011859 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 28072011860 Walker A/P-loop; other site 28072011861 ATP binding site [chemical binding]; other site 28072011862 Q-loop/lid; other site 28072011863 ABC transporter signature motif; other site 28072011864 Walker B; other site 28072011865 D-loop; other site 28072011866 H-loop/switch region; other site 28072011867 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 28072011868 FeS assembly protein SufD; Region: sufD; TIGR01981 28072011869 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 28072011870 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 28072011871 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 28072011872 catalytic residue [active] 28072011873 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072011874 putative active site [active] 28072011875 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072011876 putative active site [active] 28072011877 Uncharacterized conserved protein [Function unknown]; Region: COG0432 28072011878 hypothetical protein; Reviewed; Region: PRK12275 28072011879 four helix bundle protein; Region: TIGR02436 28072011880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072011881 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072011882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072011883 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072011884 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 28072011885 NADH(P)-binding; Region: NAD_binding_10; pfam13460 28072011886 NAD(P) binding site [chemical binding]; other site 28072011887 putative active site [active] 28072011888 aspartate aminotransferase; Provisional; Region: PRK05957 28072011889 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072011890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072011891 homodimer interface [polypeptide binding]; other site 28072011892 catalytic residue [active] 28072011893 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072011894 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072011895 Hexamer interface [polypeptide binding]; other site 28072011896 Hexagonal pore residue; other site 28072011897 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072011898 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072011899 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072011900 GAF domain; Region: GAF; pfam01590 28072011901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072011902 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072011903 dimer interface [polypeptide binding]; other site 28072011904 phosphorylation site [posttranslational modification] 28072011905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072011906 ATP binding site [chemical binding]; other site 28072011907 Mg2+ binding site [ion binding]; other site 28072011908 G-X-G motif; other site 28072011909 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 28072011910 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 28072011911 Walker A/P-loop; other site 28072011912 ATP binding site [chemical binding]; other site 28072011913 Q-loop/lid; other site 28072011914 ABC transporter signature motif; other site 28072011915 Walker B; other site 28072011916 D-loop; other site 28072011917 H-loop/switch region; other site 28072011918 TOBE domain; Region: TOBE_2; pfam08402 28072011919 GUN4-like; Region: GUN4; pfam05419 28072011920 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 28072011921 isocitrate dehydrogenase; Validated; Region: PRK07362 28072011922 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072011923 putative active site [active] 28072011924 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072011925 putative active site [active] 28072011926 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 28072011927 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072011928 S-adenosylmethionine binding site [chemical binding]; other site 28072011929 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072011930 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072011931 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 28072011932 putative acyl-acceptor binding pocket; other site 28072011933 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 28072011934 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 28072011935 active site 28072011936 HIGH motif; other site 28072011937 KMSKS motif; other site 28072011938 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 28072011939 anticodon binding site; other site 28072011940 tRNA binding surface [nucleotide binding]; other site 28072011941 Uncharacterized conserved protein [Function unknown]; Region: COG1432 28072011942 LabA_like proteins; Region: LabA; cd10911 28072011943 putative metal binding site [ion binding]; other site 28072011944 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 28072011945 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 28072011946 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 28072011947 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 28072011948 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 28072011949 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 28072011950 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 28072011951 catalytic residues [active] 28072011952 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 28072011953 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 28072011954 active site 28072011955 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 28072011956 MutS domain III; Region: MutS_III; pfam05192 28072011957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072011958 Walker A/P-loop; other site 28072011959 ATP binding site [chemical binding]; other site 28072011960 Q-loop/lid; other site 28072011961 ABC transporter signature motif; other site 28072011962 Walker B; other site 28072011963 D-loop; other site 28072011964 H-loop/switch region; other site 28072011965 Smr domain; Region: Smr; pfam01713 28072011966 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 28072011967 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 28072011968 chaperone protein DnaJ; Provisional; Region: PRK14299 28072011969 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072011970 HSP70 interaction site [polypeptide binding]; other site 28072011971 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 28072011972 substrate binding site [polypeptide binding]; other site 28072011973 dimer interface [polypeptide binding]; other site 28072011974 molecular chaperone DnaK; Provisional; Region: PRK13410 28072011975 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 28072011976 nucleotide binding site [chemical binding]; other site 28072011977 NEF interaction site [polypeptide binding]; other site 28072011978 SBD interface [polypeptide binding]; other site 28072011979 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 28072011980 M28 Zn-Peptidases; Region: M28_like_1; cd05640 28072011981 Peptidase family M28; Region: Peptidase_M28; pfam04389 28072011982 metal binding site [ion binding]; metal-binding site 28072011983 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 28072011984 5-oxoprolinase; Region: PLN02666 28072011985 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 28072011986 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 28072011987 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 28072011988 methionine aminopeptidase; Provisional; Region: PRK12318 28072011989 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 28072011990 active site 28072011991 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 28072011992 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072011993 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072011994 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072011995 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 28072011996 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 28072011997 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 28072011998 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072011999 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 28072012000 active site 28072012001 metal binding site [ion binding]; metal-binding site 28072012002 Protein of unknown function (DUF2396); Region: DUF2396; pfam09654 28072012003 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 28072012004 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 28072012005 trimer interface [polypeptide binding]; other site 28072012006 putative metal binding site [ion binding]; other site 28072012007 photosystem II protein Y; Reviewed; Region: pbsY; PRK13240 28072012008 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 28072012009 Domain of unknown function (DUF1815); Region: DUF1815; pfam08844 28072012010 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 28072012011 active site 28072012012 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 28072012013 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072012014 Tetratricopeptide repeat; Region: TPR_10; cl17452 28072012015 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072012016 TPR motif; other site 28072012017 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072012018 binding surface 28072012019 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072012020 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 28072012021 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072012022 dimer interface [polypeptide binding]; other site 28072012023 phosphorylation site [posttranslational modification] 28072012024 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072012025 ATP binding site [chemical binding]; other site 28072012026 Mg2+ binding site [ion binding]; other site 28072012027 G-X-G motif; other site 28072012028 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 28072012029 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 28072012030 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 28072012031 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 28072012032 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 28072012033 polyphosphate kinase; Provisional; Region: PRK05443 28072012034 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 28072012035 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 28072012036 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 28072012037 putative domain interface [polypeptide binding]; other site 28072012038 putative active site [active] 28072012039 catalytic site [active] 28072012040 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 28072012041 putative domain interface [polypeptide binding]; other site 28072012042 putative active site [active] 28072012043 catalytic site [active] 28072012044 Response regulator receiver domain; Region: Response_reg; pfam00072 28072012045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012046 active site 28072012047 phosphorylation site [posttranslational modification] 28072012048 intermolecular recognition site; other site 28072012049 dimerization interface [polypeptide binding]; other site 28072012050 Protein of unknown function (DUF2854); Region: DUF2854; pfam11016 28072012051 Protein of unknown function (DUF3571); Region: DUF3571; pfam12095 28072012052 Response regulator receiver domain; Region: Response_reg; pfam00072 28072012053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012054 active site 28072012055 phosphorylation site [posttranslational modification] 28072012056 intermolecular recognition site; other site 28072012057 dimerization interface [polypeptide binding]; other site 28072012058 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072012059 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072012060 metal binding site [ion binding]; metal-binding site 28072012061 active site 28072012062 I-site; other site 28072012063 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 28072012064 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_13; cd06348 28072012065 putative ligand binding site [chemical binding]; other site 28072012066 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 28072012067 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 28072012068 TM-ABC transporter signature motif; other site 28072012069 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072012070 putative active site [active] 28072012071 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 28072012072 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 28072012073 TM-ABC transporter signature motif; other site 28072012074 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 28072012075 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 28072012076 Walker A/P-loop; other site 28072012077 ATP binding site [chemical binding]; other site 28072012078 Q-loop/lid; other site 28072012079 ABC transporter signature motif; other site 28072012080 Walker B; other site 28072012081 D-loop; other site 28072012082 H-loop/switch region; other site 28072012083 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072012084 putative active site [active] 28072012085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 28072012086 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 28072012087 Walker A/P-loop; other site 28072012088 ATP binding site [chemical binding]; other site 28072012089 Q-loop/lid; other site 28072012090 ABC transporter signature motif; other site 28072012091 Walker B; other site 28072012092 D-loop; other site 28072012093 H-loop/switch region; other site 28072012094 Transposase; Region: HTH_Tnp_IS630; pfam01710 28072012095 Homeodomain-like domain; Region: HTH_32; pfam13565 28072012096 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072012097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072012098 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 28072012099 catalytic core [active] 28072012100 glucokinase; Provisional; Region: glk; PRK00292 28072012101 glucokinase, proteobacterial type; Region: glk; TIGR00749 28072012102 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 28072012103 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 28072012104 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 28072012105 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 28072012106 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 28072012107 NurA nuclease; Region: NurA; smart00933 28072012108 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 28072012109 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 28072012110 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 28072012111 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 28072012112 ABC-ATPase subunit interface; other site 28072012113 dimer interface [polypeptide binding]; other site 28072012114 putative PBP binding regions; other site 28072012115 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 28072012116 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 28072012117 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 28072012118 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 28072012119 metal binding site [ion binding]; metal-binding site 28072012120 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 28072012121 Dynamin family; Region: Dynamin_N; pfam00350 28072012122 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 28072012123 G1 box; other site 28072012124 GTP/Mg2+ binding site [chemical binding]; other site 28072012125 Switch I region; other site 28072012126 G2 box; other site 28072012127 Switch II region; other site 28072012128 G3 box; other site 28072012129 G4 box; other site 28072012130 G5 box; other site 28072012131 Domain of unknown function (DUF697); Region: DUF697; pfam05128 28072012132 CP12 domain; Region: CP12; pfam02672 28072012133 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 28072012134 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 28072012135 RNA binding surface [nucleotide binding]; other site 28072012136 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 28072012137 allophycocyanin, beta subunit; Region: apcB; TIGR01337 28072012138 glutamine synthetase, type I; Region: GlnA; TIGR00653 28072012139 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 28072012140 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 28072012141 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072012142 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072012143 S-adenosylmethionine binding site [chemical binding]; other site 28072012144 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 28072012145 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072012146 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072012147 active site 28072012148 ATP binding site [chemical binding]; other site 28072012149 substrate binding site [chemical binding]; other site 28072012150 activation loop (A-loop); other site 28072012151 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 28072012152 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 28072012153 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 28072012154 putative NAD(P) binding site [chemical binding]; other site 28072012155 catalytic Zn binding site [ion binding]; other site 28072012156 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 28072012157 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 28072012158 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 28072012159 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 28072012160 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072012161 putative substrate translocation pore; other site 28072012162 heterocyst differentiation control protein; Reviewed; Region: hetR; PRK13245 28072012163 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 28072012164 Phage Tail Collar Domain; Region: Collar; pfam07484 28072012165 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 28072012166 Phage Tail Collar Domain; Region: Collar; pfam07484 28072012167 Phage Tail Collar Domain; Region: Collar; pfam07484 28072012168 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 28072012169 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072012170 membrane-bound complex binding site; other site 28072012171 hinge residues; other site 28072012172 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072012173 dimerization interface [polypeptide binding]; other site 28072012174 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072012175 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072012176 ATP binding site [chemical binding]; other site 28072012177 G-X-G motif; other site 28072012178 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 28072012179 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 28072012180 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072012181 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 28072012182 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072012183 motif II; other site 28072012184 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 28072012185 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 28072012186 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072012187 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072012188 active site 28072012189 ATP binding site [chemical binding]; other site 28072012190 substrate binding site [chemical binding]; other site 28072012191 activation loop (A-loop); other site 28072012192 GUN4-like; Region: GUN4; pfam05419 28072012193 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 28072012194 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 28072012195 putative active site [active] 28072012196 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 28072012197 putative active site [active] 28072012198 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 28072012199 active site 28072012200 SAM binding site [chemical binding]; other site 28072012201 homodimer interface [polypeptide binding]; other site 28072012202 hypothetical protein; Provisional; Region: PRK06185 28072012203 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 28072012204 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 28072012205 Response regulator receiver domain; Region: Response_reg; pfam00072 28072012206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012207 active site 28072012208 phosphorylation site [posttranslational modification] 28072012209 intermolecular recognition site; other site 28072012210 dimerization interface [polypeptide binding]; other site 28072012211 Response regulator receiver domain; Region: Response_reg; pfam00072 28072012212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012213 active site 28072012214 phosphorylation site [posttranslational modification] 28072012215 intermolecular recognition site; other site 28072012216 dimerization interface [polypeptide binding]; other site 28072012217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072012218 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072012219 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072012220 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072012221 hypothetical protein; Reviewed; Region: PRK12275 28072012222 four helix bundle protein; Region: TIGR02436 28072012223 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072012224 putative active site [active] 28072012225 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 28072012226 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 28072012227 RNA binding surface [nucleotide binding]; other site 28072012228 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 28072012229 active site 28072012230 Phycobilisome protein; Region: Phycobilisome; cl08227 28072012231 Phycobilisome protein; Region: Phycobilisome; cl08227 28072012232 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072012233 CpcD/allophycocyanin linker domain; Region: CpcD; smart01094 28072012234 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 28072012235 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 28072012236 HEAT repeats; Region: HEAT_2; pfam13646 28072012237 HEAT repeats; Region: HEAT_2; pfam13646 28072012238 phycocyanin, beta subunit; Region: phycocy_beta; TIGR01339 28072012239 phycocyanin, alpha subunit; Region: phycocy_alpha; TIGR01338 28072012240 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072012241 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 28072012242 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 28072012243 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 28072012244 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 28072012245 HEAT repeats; Region: HEAT_2; pfam13646 28072012246 HEAT repeats; Region: HEAT_2; pfam13646 28072012247 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072012248 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072012249 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072012250 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072012251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 28072012252 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072012253 S-adenosylmethionine binding site [chemical binding]; other site 28072012254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 28072012255 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072012256 dimerization interface [polypeptide binding]; other site 28072012257 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 28072012258 cyclase homology domain; Region: CHD; cd07302 28072012259 nucleotidyl binding site; other site 28072012260 metal binding site [ion binding]; metal-binding site 28072012261 dimer interface [polypeptide binding]; other site 28072012262 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 28072012263 metal coordination site [ion binding]; other site 28072012264 Moco binding site; other site 28072012265 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 28072012266 Proline dehydrogenase; Region: Pro_dh; pfam01619 28072012267 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 28072012268 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 28072012269 Glutamate binding site [chemical binding]; other site 28072012270 homodimer interface [polypeptide binding]; other site 28072012271 NAD binding site [chemical binding]; other site 28072012272 catalytic residues [active] 28072012273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 28072012274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072012275 Coenzyme A binding pocket [chemical binding]; other site 28072012276 Domain of unknown function (DUF1818); Region: DUF1818; pfam08848 28072012277 DNA-directed RNA polymerase subunit omega; Provisional; Region: ycf61; CHL00191 28072012278 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 28072012279 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072012280 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 28072012281 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 28072012282 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 28072012283 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072012284 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 28072012285 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 28072012286 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 28072012287 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 28072012288 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 28072012289 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 28072012290 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 28072012291 hinge; other site 28072012292 active site 28072012293 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 28072012294 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 28072012295 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 28072012296 active site 28072012297 substrate binding site [chemical binding]; other site 28072012298 FMN binding site [chemical binding]; other site 28072012299 putative catalytic residues [active] 28072012300 Stage II sporulation protein; Region: SpoIID; pfam08486 28072012301 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 28072012302 Peptidase M15; Region: Peptidase_M15_3; cl01194 28072012303 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 28072012304 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 28072012305 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 28072012306 Peptidase family M48; Region: Peptidase_M48; pfam01435 28072012307 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 28072012308 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 28072012309 active site 28072012310 metal binding site [ion binding]; metal-binding site 28072012311 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 28072012312 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 28072012313 active site 28072012314 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 28072012315 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 28072012316 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 28072012317 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 28072012318 Predicted integral membrane protein [Function unknown]; Region: COG5542 28072012319 Predicted membrane protein [Function unknown]; Region: COG3463 28072012320 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 28072012321 Predicted integral membrane protein [Function unknown]; Region: COG5542 28072012322 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 28072012323 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 28072012324 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 28072012325 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 28072012326 NodB motif; other site 28072012327 active site 28072012328 catalytic site [active] 28072012329 metal binding site [ion binding]; metal-binding site 28072012330 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 28072012331 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 28072012332 active site 28072012333 dimer interface [polypeptide binding]; other site 28072012334 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 28072012335 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 28072012336 active site 28072012337 FMN binding site [chemical binding]; other site 28072012338 substrate binding site [chemical binding]; other site 28072012339 3Fe-4S cluster binding site [ion binding]; other site 28072012340 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 28072012341 domain interface; other site 28072012342 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 28072012343 Cupin domain; Region: Cupin_2; cl17218 28072012344 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 28072012345 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 28072012346 S17 interaction site [polypeptide binding]; other site 28072012347 S8 interaction site; other site 28072012348 16S rRNA interaction site [nucleotide binding]; other site 28072012349 streptomycin interaction site [chemical binding]; other site 28072012350 23S rRNA interaction site [nucleotide binding]; other site 28072012351 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 28072012352 30S ribosomal protein S7; Validated; Region: PRK05302 28072012353 elongation factor G; Reviewed; Region: PRK00007 28072012354 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 28072012355 G1 box; other site 28072012356 putative GEF interaction site [polypeptide binding]; other site 28072012357 GTP/Mg2+ binding site [chemical binding]; other site 28072012358 Switch I region; other site 28072012359 G2 box; other site 28072012360 G3 box; other site 28072012361 Switch II region; other site 28072012362 G4 box; other site 28072012363 G5 box; other site 28072012364 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 28072012365 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 28072012366 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 28072012367 elongation factor Tu; Region: tufA; CHL00071 28072012368 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 28072012369 G1 box; other site 28072012370 GEF interaction site [polypeptide binding]; other site 28072012371 GTP/Mg2+ binding site [chemical binding]; other site 28072012372 Switch I region; other site 28072012373 G2 box; other site 28072012374 G3 box; other site 28072012375 Switch II region; other site 28072012376 G4 box; other site 28072012377 G5 box; other site 28072012378 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 28072012379 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 28072012380 Antibiotic Binding Site [chemical binding]; other site 28072012381 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 28072012382 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 28072012383 prephenate dehydratase; Provisional; Region: PRK11898 28072012384 Prephenate dehydratase; Region: PDT; pfam00800 28072012385 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 28072012386 putative L-Phe binding site [chemical binding]; other site 28072012387 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 28072012388 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 28072012389 RNA/DNA hybrid binding site [nucleotide binding]; other site 28072012390 active site 28072012391 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 28072012392 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 28072012393 homodimer interface [polypeptide binding]; other site 28072012394 oligonucleotide binding site [chemical binding]; other site 28072012395 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 28072012396 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 28072012397 B12 binding site [chemical binding]; other site 28072012398 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 28072012399 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 28072012400 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 28072012401 anti sigma factor interaction site; other site 28072012402 regulatory phosphorylation site [posttranslational modification]; other site 28072012403 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 28072012404 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072012405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072012406 homodimer interface [polypeptide binding]; other site 28072012407 catalytic residue [active] 28072012408 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 28072012409 CAAX protease self-immunity; Region: Abi; pfam02517 28072012410 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 28072012411 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 28072012412 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 28072012413 Transposase [DNA replication, recombination, and repair]; Region: COG5421 28072012414 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072012415 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012416 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012417 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072012418 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012419 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012420 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012421 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; cl01731 28072012422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 28072012423 Zn2+ binding site [ion binding]; other site 28072012424 Mg2+ binding site [ion binding]; other site 28072012425 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 28072012426 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072012427 FeS/SAM binding site; other site 28072012428 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 28072012429 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 28072012430 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 28072012431 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 28072012432 Walker A/P-loop; other site 28072012433 ATP binding site [chemical binding]; other site 28072012434 Q-loop/lid; other site 28072012435 ABC transporter signature motif; other site 28072012436 Walker B; other site 28072012437 D-loop; other site 28072012438 H-loop/switch region; other site 28072012439 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072012440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012441 active site 28072012442 phosphorylation site [posttranslational modification] 28072012443 intermolecular recognition site; other site 28072012444 dimerization interface [polypeptide binding]; other site 28072012445 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072012446 DNA binding site [nucleotide binding] 28072012447 Uncharacterized conserved protein [Function unknown]; Region: COG4983 28072012448 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 28072012449 putative GSH binding site [chemical binding]; other site 28072012450 catalytic residues [active] 28072012451 BolA-like protein; Region: BolA; pfam01722 28072012452 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 28072012453 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 28072012454 active site 28072012455 catalytic triad [active] 28072012456 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 28072012457 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 28072012458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 28072012459 putative acyl-acceptor binding pocket; other site 28072012460 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 28072012461 nucleoside/Zn binding site; other site 28072012462 dimer interface [polypeptide binding]; other site 28072012463 catalytic motif [active] 28072012464 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 28072012465 GSH binding site [chemical binding]; other site 28072012466 catalytic residues [active] 28072012467 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 28072012468 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 28072012469 putative active site [active] 28072012470 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 28072012471 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 28072012472 tRNA; other site 28072012473 putative tRNA binding site [nucleotide binding]; other site 28072012474 putative NADP binding site [chemical binding]; other site 28072012475 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 28072012476 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072012477 dimerization interface [polypeptide binding]; other site 28072012478 putative DNA binding site [nucleotide binding]; other site 28072012479 putative Zn2+ binding site [ion binding]; other site 28072012480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3860 28072012481 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 28072012482 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 28072012483 Walker A/P-loop; other site 28072012484 ATP binding site [chemical binding]; other site 28072012485 Q-loop/lid; other site 28072012486 ABC transporter signature motif; other site 28072012487 Walker B; other site 28072012488 D-loop; other site 28072012489 H-loop/switch region; other site 28072012490 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 28072012491 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 28072012492 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 28072012493 TM-ABC transporter signature motif; other site 28072012494 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 28072012495 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 28072012496 active site 28072012497 dimer interface [polypeptide binding]; other site 28072012498 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 28072012499 dimer interface [polypeptide binding]; other site 28072012500 active site 28072012501 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 28072012502 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 28072012503 Domain of unknown function (DUF1802); Region: DUF1802; pfam08819 28072012504 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 28072012505 malate dehydrogenase; Reviewed; Region: PRK06223 28072012506 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 28072012507 NAD(P) binding site [chemical binding]; other site 28072012508 dimer interface [polypeptide binding]; other site 28072012509 tetramer (dimer of dimers) interface [polypeptide binding]; other site 28072012510 substrate binding site [chemical binding]; other site 28072012511 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 28072012512 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 28072012513 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 28072012514 Cyanobacterial and plant NDH-1 subunit O; Region: NdhO; pfam11910 28072012515 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK13945 28072012516 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 28072012517 DNA binding site [nucleotide binding] 28072012518 catalytic residue [active] 28072012519 H2TH interface [polypeptide binding]; other site 28072012520 putative catalytic residues [active] 28072012521 turnover-facilitating residue; other site 28072012522 intercalation triad [nucleotide binding]; other site 28072012523 8OG recognition residue [nucleotide binding]; other site 28072012524 putative reading head residues; other site 28072012525 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 28072012526 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 28072012527 photosystem I reaction center subunit IV; Provisional; Region: PRK02749 28072012528 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 28072012529 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 28072012530 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 28072012531 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 28072012532 Mg++ binding site [ion binding]; other site 28072012533 putative catalytic motif [active] 28072012534 putative substrate binding site [chemical binding]; other site 28072012535 Predicted membrane protein [Function unknown]; Region: COG3650 28072012536 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072012537 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072012538 active site 28072012539 ATP binding site [chemical binding]; other site 28072012540 substrate binding site [chemical binding]; other site 28072012541 activation loop (A-loop); other site 28072012542 isoleucyl-tRNA synthetase; Region: PLN02843 28072012543 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 28072012544 HIGH motif; other site 28072012545 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 28072012546 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 28072012547 active site 28072012548 KMSKS motif; other site 28072012549 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 28072012550 tRNA binding surface [nucleotide binding]; other site 28072012551 anticodon binding site; other site 28072012552 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 28072012553 Protein of unknown function (DUF433); Region: DUF433; cl01030 28072012554 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 28072012555 AIPR protein; Region: AIPR; pfam10592 28072012556 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 28072012557 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 28072012558 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 28072012559 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 28072012560 Transposase; Region: DEDD_Tnp_IS110; pfam01548 28072012561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 28072012562 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 28072012563 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 28072012564 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072012565 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072012566 active site 28072012567 ATP binding site [chemical binding]; other site 28072012568 substrate binding site [chemical binding]; other site 28072012569 activation loop (A-loop); other site 28072012570 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 28072012571 haemagglutination activity domain; Region: Haemagg_act; pfam05860 28072012572 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 28072012573 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 28072012574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072012575 dimer interface [polypeptide binding]; other site 28072012576 conserved gate region; other site 28072012577 putative PBP binding loops; other site 28072012578 ABC-ATPase subunit interface; other site 28072012579 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 28072012580 dinuclear metal binding motif [ion binding]; other site 28072012581 acyl-ACP reductase; Provisional; Region: PRK14982 28072012582 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 28072012583 NAD(P) binding pocket [chemical binding]; other site 28072012584 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 28072012585 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 28072012586 short chain dehydrogenase; Provisional; Region: PRK07454 28072012587 classical (c) SDRs; Region: SDR_c; cd05233 28072012588 NAD(P) binding site [chemical binding]; other site 28072012589 active site 28072012590 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 28072012591 homodecamer interface [polypeptide binding]; other site 28072012592 GTP cyclohydrolase I; Provisional; Region: PLN03044 28072012593 active site 28072012594 putative catalytic site residues [active] 28072012595 zinc binding site [ion binding]; other site 28072012596 GTP-CH-I/GFRP interaction surface; other site 28072012597 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 28072012598 active site 28072012599 PemK-like protein; Region: PemK; pfam02452 28072012600 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072012601 putative active site [active] 28072012602 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 28072012603 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 28072012604 AMIN domain; Region: AMIN; pfam11741 28072012605 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 28072012606 Secretin and TonB N terminus short domain; Region: STN; pfam07660 28072012607 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 28072012608 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 28072012609 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 28072012610 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 28072012611 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 28072012612 Cell division protein FtsA; Region: FtsA; cl17206 28072012613 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 28072012614 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 28072012615 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072012616 putative active site [active] 28072012617 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 28072012618 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 28072012619 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 28072012620 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 28072012621 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 28072012622 Uncharacterized conserved protein [Function unknown]; Region: COG1434 28072012623 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 28072012624 putative active site [active] 28072012625 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 28072012626 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 28072012627 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 28072012628 protein binding site [polypeptide binding]; other site 28072012629 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 28072012630 Catalytic dyad [active] 28072012631 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072012632 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072012633 active site 28072012634 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072012635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012636 active site 28072012637 phosphorylation site [posttranslational modification] 28072012638 intermolecular recognition site; other site 28072012639 dimerization interface [polypeptide binding]; other site 28072012640 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072012641 DNA binding residues [nucleotide binding] 28072012642 dimerization interface [polypeptide binding]; other site 28072012643 Cyanobacterial and plastid NDH-1 subunit M; Region: NdhM; pfam10664 28072012644 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 28072012645 Protein phosphatase 2C; Region: PP2C; pfam00481 28072012646 active site 28072012647 CHAT domain; Region: CHAT; pfam12770 28072012648 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072012649 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072012650 phosphopeptide binding site; other site 28072012651 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072012652 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072012653 phosphopeptide binding site; other site 28072012654 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 28072012655 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 28072012656 Predicted membrane protein [Function unknown]; Region: COG3431 28072012657 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 28072012658 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 28072012659 [4Fe-4S] binding site [ion binding]; other site 28072012660 molybdopterin cofactor binding site; other site 28072012661 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 28072012662 molybdopterin cofactor binding site; other site 28072012663 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072012664 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 28072012665 Walker A/P-loop; other site 28072012666 ATP binding site [chemical binding]; other site 28072012667 Q-loop/lid; other site 28072012668 ABC transporter signature motif; other site 28072012669 Walker B; other site 28072012670 D-loop; other site 28072012671 H-loop/switch region; other site 28072012672 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072012673 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 28072012674 Walker A/P-loop; other site 28072012675 ATP binding site [chemical binding]; other site 28072012676 Q-loop/lid; other site 28072012677 ABC transporter signature motif; other site 28072012678 Walker B; other site 28072012679 D-loop; other site 28072012680 H-loop/switch region; other site 28072012681 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072012682 NMT1-like family; Region: NMT1_2; pfam13379 28072012683 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 28072012684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072012685 dimer interface [polypeptide binding]; other site 28072012686 conserved gate region; other site 28072012687 putative PBP binding loops; other site 28072012688 ABC-ATPase subunit interface; other site 28072012689 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072012690 NMT1-like family; Region: NMT1_2; pfam13379 28072012691 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 28072012692 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 28072012693 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 28072012694 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 28072012695 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 28072012696 iron-sulfur cluster [ion binding]; other site 28072012697 [2Fe-2S] cluster binding site [ion binding]; other site 28072012698 HEAT repeats; Region: HEAT_2; pfam13646 28072012699 HEAT repeats; Region: HEAT_2; pfam13646 28072012700 HEAT repeats; Region: HEAT_2; pfam13646 28072012701 hypothetical protein; Reviewed; Region: PRK12275 28072012702 four helix bundle protein; Region: TIGR02436 28072012703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072012704 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072012705 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072012706 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072012707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 28072012708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 28072012709 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 28072012710 dimerization interface [polypeptide binding]; other site 28072012711 hypothetical protein; Provisional; Region: PRK07394 28072012712 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 28072012713 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 28072012714 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072012715 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072012716 Small integral membrane protein [Function unknown]; Region: COG5548 28072012717 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 28072012718 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072012719 Walker A motif; other site 28072012720 ATP binding site [chemical binding]; other site 28072012721 Walker B motif; other site 28072012722 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 28072012723 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 28072012724 AAA ATPase domain; Region: AAA_16; pfam13191 28072012725 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 28072012726 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072012727 putative Mg++ binding site [ion binding]; other site 28072012728 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072012729 nucleotide binding region [chemical binding]; other site 28072012730 ATP-binding site [chemical binding]; other site 28072012731 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012732 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072012733 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012734 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012735 hypothetical protein; Reviewed; Region: PRK12497 28072012736 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 28072012737 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 28072012738 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072012739 binding surface 28072012740 TPR motif; other site 28072012741 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072012742 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072012743 binding surface 28072012744 TPR motif; other site 28072012745 TPR repeat; Region: TPR_11; pfam13414 28072012746 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072012747 TPR motif; other site 28072012748 TPR repeat; Region: TPR_11; pfam13414 28072012749 binding surface 28072012750 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 28072012751 TrkA-N domain; Region: TrkA_N; pfam02254 28072012752 TrkA-C domain; Region: TrkA_C; pfam02080 28072012753 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 28072012754 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 28072012755 tocopherol O-methyltransferase; Region: PLN02244 28072012756 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072012757 S-adenosylmethionine binding site [chemical binding]; other site 28072012758 tocopherol phytyltransferase; Reviewed; Region: ubiA; PRK12887 28072012759 UbiA prenyltransferase family; Region: UbiA; pfam01040 28072012760 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072012761 binding surface 28072012762 Tetratricopeptide repeat; Region: TPR_16; pfam13432 28072012763 TPR motif; other site 28072012764 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 28072012765 active site 28072012766 SAM binding site [chemical binding]; other site 28072012767 homodimer interface [polypeptide binding]; other site 28072012768 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 28072012769 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 28072012770 active site 28072012771 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 28072012772 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 28072012773 active site 28072012774 interdomain interaction site; other site 28072012775 putative metal-binding site [ion binding]; other site 28072012776 nucleotide binding site [chemical binding]; other site 28072012777 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 28072012778 domain I; other site 28072012779 phosphate binding site [ion binding]; other site 28072012780 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 28072012781 domain II; other site 28072012782 domain III; other site 28072012783 nucleotide binding site [chemical binding]; other site 28072012784 DNA binding groove [nucleotide binding] 28072012785 catalytic site [active] 28072012786 domain IV; other site 28072012787 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 28072012788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072012789 Coenzyme A binding pocket [chemical binding]; other site 28072012790 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 28072012791 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 28072012792 Protein of unknown function (DUF3727); Region: DUF3727; pfam12527 28072012793 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 28072012794 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072012795 gamma-glutamyl kinase; Provisional; Region: PRK05429 28072012796 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 28072012797 nucleotide binding site [chemical binding]; other site 28072012798 homotetrameric interface [polypeptide binding]; other site 28072012799 putative phosphate binding site [ion binding]; other site 28072012800 putative allosteric binding site; other site 28072012801 PUA domain; Region: PUA; pfam01472 28072012802 Uncharacterized conserved protein [Function unknown]; Region: COG1565 28072012803 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 28072012804 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 28072012805 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 28072012806 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072012807 ATP binding site [chemical binding]; other site 28072012808 Mg2+ binding site [ion binding]; other site 28072012809 G-X-G motif; other site 28072012810 Predicted permeases [General function prediction only]; Region: COG0701 28072012811 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 28072012812 Bacterial Ig-like domain; Region: Big_5; pfam13205 28072012813 hypothetical protein; Provisional; Region: PRK11281 28072012814 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 28072012815 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 28072012816 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 28072012817 active site 28072012818 catalytic residues [active] 28072012819 metal binding site [ion binding]; metal-binding site 28072012820 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 28072012821 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 28072012822 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072012823 catalytic loop [active] 28072012824 iron binding site [ion binding]; other site 28072012825 hydroxyglutarate oxidase; Provisional; Region: PRK11728 28072012826 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 28072012827 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 28072012828 ThiS interaction site; other site 28072012829 putative active site [active] 28072012830 tetramer interface [polypeptide binding]; other site 28072012831 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072012832 TPR motif; other site 28072012833 binding surface 28072012834 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072012835 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072012836 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 28072012837 binding surface 28072012838 TPR motif; other site 28072012839 Uncharacterized subfamily of glycoside hydrolase family 57 (GH57); Region: GH57N_like_1; cd10798 28072012840 active site 28072012841 catalytic site [active] 28072012842 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 28072012843 classical (c) SDRs; Region: SDR_c; cd05233 28072012844 NAD(P) binding site [chemical binding]; other site 28072012845 active site 28072012846 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 28072012847 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 28072012848 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072012849 ribosomal protein S4; Reviewed; Region: rps4; CHL00113 28072012850 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 28072012851 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 28072012852 RNA binding surface [nucleotide binding]; other site 28072012853 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 28072012854 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072012855 FeS/SAM binding site; other site 28072012856 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 28072012857 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 28072012858 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 28072012859 Walker A/P-loop; other site 28072012860 ATP binding site [chemical binding]; other site 28072012861 Q-loop/lid; other site 28072012862 ABC transporter signature motif; other site 28072012863 Walker B; other site 28072012864 D-loop; other site 28072012865 H-loop/switch region; other site 28072012866 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 28072012867 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 28072012868 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072012869 motif II; other site 28072012870 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 28072012871 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 28072012872 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 28072012873 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 28072012874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072012875 Probable transposase; Region: OrfB_IS605; pfam01385 28072012876 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072012877 Transposase IS200 like; Region: Y1_Tnp; pfam01797 28072012878 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 28072012879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 28072012880 ATP binding site [chemical binding]; other site 28072012881 Mg2+ binding site [ion binding]; other site 28072012882 G-X-G motif; other site 28072012883 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072012884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012885 active site 28072012886 phosphorylation site [posttranslational modification] 28072012887 intermolecular recognition site; other site 28072012888 dimerization interface [polypeptide binding]; other site 28072012889 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072012890 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072012891 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 28072012892 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 28072012893 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072012894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072012895 active site 28072012896 phosphorylation site [posttranslational modification] 28072012897 intermolecular recognition site; other site 28072012898 dimerization interface [polypeptide binding]; other site 28072012899 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072012900 DNA binding residues [nucleotide binding] 28072012901 dimerization interface [polypeptide binding]; other site 28072012902 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 28072012903 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 28072012904 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 28072012905 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072012906 Walker A/P-loop; other site 28072012907 ATP binding site [chemical binding]; other site 28072012908 Q-loop/lid; other site 28072012909 ABC transporter signature motif; other site 28072012910 Walker B; other site 28072012911 D-loop; other site 28072012912 H-loop/switch region; other site 28072012913 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 28072012914 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 28072012915 active site 28072012916 interdomain interaction site; other site 28072012917 putative metal-binding site [ion binding]; other site 28072012918 nucleotide binding site [chemical binding]; other site 28072012919 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 28072012920 domain I; other site 28072012921 phosphate binding site [ion binding]; other site 28072012922 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 28072012923 domain II; other site 28072012924 domain III; other site 28072012925 nucleotide binding site [chemical binding]; other site 28072012926 DNA binding groove [nucleotide binding] 28072012927 catalytic site [active] 28072012928 domain IV; other site 28072012929 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 28072012930 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 28072012931 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 28072012932 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 28072012933 Dehydroquinase class II; Region: DHquinase_II; pfam01220 28072012934 trimer interface [polypeptide binding]; other site 28072012935 active site 28072012936 dimer interface [polypeptide binding]; other site 28072012937 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 28072012938 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 28072012939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 28072012940 Zn2+ binding site [ion binding]; other site 28072012941 Mg2+ binding site [ion binding]; other site 28072012942 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 28072012943 hydroxyglutarate oxidase; Provisional; Region: PRK11728 28072012944 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 28072012945 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 28072012946 generic binding surface II; other site 28072012947 generic binding surface I; other site 28072012948 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 28072012949 putative active site [active] 28072012950 putative catalytic site [active] 28072012951 putative Mg binding site IVb [ion binding]; other site 28072012952 putative phosphate binding site [ion binding]; other site 28072012953 putative DNA binding site [nucleotide binding]; other site 28072012954 putative Mg binding site IVa [ion binding]; other site 28072012955 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072012956 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 28072012957 Cytochrome P450; Region: p450; pfam00067 28072012958 Putative transcription activator [Transcription]; Region: TenA; COG0819 28072012959 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 28072012960 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012961 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012962 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072012963 TPR repeat; Region: TPR_11; pfam13414 28072012964 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 28072012965 TPR motif; other site 28072012966 binding surface 28072012967 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 28072012968 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 28072012969 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 28072012970 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 28072012971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 28072012972 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 28072012973 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 28072012974 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 28072012975 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 28072012976 PYR/PP interface [polypeptide binding]; other site 28072012977 dimer interface [polypeptide binding]; other site 28072012978 TPP binding site [chemical binding]; other site 28072012979 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 28072012980 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 28072012981 TPP-binding site [chemical binding]; other site 28072012982 dimer interface [polypeptide binding]; other site 28072012983 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 28072012984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072012985 H+ Antiporter protein; Region: 2A0121; TIGR00900 28072012986 putative substrate translocation pore; other site 28072012987 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 28072012988 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 28072012989 C-terminal domain interface [polypeptide binding]; other site 28072012990 active site 28072012991 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 28072012992 active site 28072012993 N-terminal domain interface [polypeptide binding]; other site 28072012994 Predicted flavoprotein [General function prediction only]; Region: COG0431 28072012995 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 28072012996 cell division protein; Validated; Region: ftsH; CHL00176 28072012997 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072012998 Walker A motif; other site 28072012999 ATP binding site [chemical binding]; other site 28072013000 Walker B motif; other site 28072013001 arginine finger; other site 28072013002 Peptidase family M41; Region: Peptidase_M41; pfam01434 28072013003 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072013004 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072013005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 28072013006 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072013007 Helix-turn-helix domain; Region: HTH_38; pfam13936 28072013008 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072013009 putative active site [active] 28072013010 Protein of unknown function (DUF2281); Region: DUF2281; pfam10047 28072013011 magnesium chelatase subunit H; Provisional; Region: PRK12493 28072013012 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072013013 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072013014 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072013015 putative active site [active] 28072013016 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072013017 non-specific DNA binding site [nucleotide binding]; other site 28072013018 salt bridge; other site 28072013019 sequence-specific DNA binding site [nucleotide binding]; other site 28072013020 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 28072013021 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 28072013022 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 28072013023 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072013024 TPR motif; other site 28072013025 binding surface 28072013026 Tetratricopeptide repeat; Region: TPR_1; pfam00515 28072013027 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072013028 binding surface 28072013029 TPR motif; other site 28072013030 AMIN domain; Region: AMIN; pfam11741 28072013031 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072013032 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072013033 N-terminal plug; other site 28072013034 ligand-binding site [chemical binding]; other site 28072013035 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 28072013036 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072013037 N-terminal plug; other site 28072013038 ligand-binding site [chemical binding]; other site 28072013039 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 28072013040 dimer interface [polypeptide binding]; other site 28072013041 [2Fe-2S] cluster binding site [ion binding]; other site 28072013042 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 28072013043 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 28072013044 putative ligand binding site [chemical binding]; other site 28072013045 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 28072013046 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 28072013047 ABC-ATPase subunit interface; other site 28072013048 dimer interface [polypeptide binding]; other site 28072013049 putative PBP binding regions; other site 28072013050 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 28072013051 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 28072013052 Walker A/P-loop; other site 28072013053 ATP binding site [chemical binding]; other site 28072013054 Q-loop/lid; other site 28072013055 ABC transporter signature motif; other site 28072013056 Walker B; other site 28072013057 D-loop; other site 28072013058 H-loop/switch region; other site 28072013059 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 28072013060 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 28072013061 Walker A/P-loop; other site 28072013062 ATP binding site [chemical binding]; other site 28072013063 Q-loop/lid; other site 28072013064 ABC transporter signature motif; other site 28072013065 Walker B; other site 28072013066 D-loop; other site 28072013067 H-loop/switch region; other site 28072013068 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 28072013069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072013070 Walker A/P-loop; other site 28072013071 ATP binding site [chemical binding]; other site 28072013072 Q-loop/lid; other site 28072013073 ABC transporter signature motif; other site 28072013074 Walker B; other site 28072013075 D-loop; other site 28072013076 H-loop/switch region; other site 28072013077 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 28072013078 AMIN domain; Region: AMIN; pfam11741 28072013079 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 28072013080 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072013081 N-terminal plug; other site 28072013082 ligand-binding site [chemical binding]; other site 28072013083 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 28072013084 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072013085 active site 28072013086 metal binding site [ion binding]; metal-binding site 28072013087 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072013088 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 28072013089 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 28072013090 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 28072013091 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 28072013092 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 28072013093 Zn2+ binding site [ion binding]; other site 28072013094 Mg2+ binding site [ion binding]; other site 28072013095 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 28072013096 synthetase active site [active] 28072013097 NTP binding site [chemical binding]; other site 28072013098 metal binding site [ion binding]; metal-binding site 28072013099 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 28072013100 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 28072013101 PEP-CTERM family integral membrane protein; Region: PEP_integral; TIGR02921 28072013102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072013103 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 28072013104 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 28072013105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 28072013106 Walker A/P-loop; other site 28072013107 ATP binding site [chemical binding]; other site 28072013108 Q-loop/lid; other site 28072013109 ABC transporter signature motif; other site 28072013110 Walker B; other site 28072013111 D-loop; other site 28072013112 H-loop/switch region; other site 28072013113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 28072013114 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 28072013115 Walker A/P-loop; other site 28072013116 ATP binding site [chemical binding]; other site 28072013117 Q-loop/lid; other site 28072013118 ABC transporter signature motif; other site 28072013119 Walker B; other site 28072013120 D-loop; other site 28072013121 H-loop/switch region; other site 28072013122 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 28072013123 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 28072013124 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072013125 Coenzyme A binding pocket [chemical binding]; other site 28072013126 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 28072013127 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 28072013128 dimer interface [polypeptide binding]; other site 28072013129 putative anticodon binding site; other site 28072013130 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 28072013131 motif 1; other site 28072013132 active site 28072013133 motif 2; other site 28072013134 motif 3; other site 28072013135 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 28072013136 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 28072013137 active site 28072013138 dimerization interface [polypeptide binding]; other site 28072013139 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 28072013140 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 28072013141 active site 28072013142 substrate binding site [chemical binding]; other site 28072013143 metal binding site [ion binding]; metal-binding site 28072013144 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 28072013145 Mg binding site [ion binding]; other site 28072013146 nucleotide binding site [chemical binding]; other site 28072013147 putative protofilament interface [polypeptide binding]; other site 28072013148 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 28072013149 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 28072013150 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 28072013151 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 28072013152 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 28072013153 Ligand Binding Site [chemical binding]; other site 28072013154 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 28072013155 Domain of unknown function DUF21; Region: DUF21; pfam01595 28072013156 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 28072013157 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 28072013158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072013159 active site 28072013160 Uncharacterized conserved protein [Function unknown]; Region: COG2928 28072013161 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 28072013162 putative RNA binding site [nucleotide binding]; other site 28072013163 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 28072013164 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 28072013165 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 28072013166 P loop; other site 28072013167 GTP binding site [chemical binding]; other site 28072013168 GAF domain; Region: GAF_3; pfam13492 28072013169 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 28072013170 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 28072013171 Uncharacterized conserved protein [Function unknown]; Region: COG5634 28072013172 Lamin Tail Domain; Region: LTD; pfam00932 28072013173 PsbP; Region: PsbP; pfam01789 28072013174 Maf-like protein; Region: Maf; pfam02545 28072013175 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 28072013176 active site 28072013177 dimer interface [polypeptide binding]; other site 28072013178 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072013179 tellurium resistance terB-like protein; Region: terB_like; cd07177 28072013180 metal binding site [ion binding]; metal-binding site 28072013181 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072013182 Dynamin family; Region: Dynamin_N; pfam00350 28072013183 G1 box; other site 28072013184 GTP/Mg2+ binding site [chemical binding]; other site 28072013185 G2 box; other site 28072013186 Switch I region; other site 28072013187 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 28072013188 G3 box; other site 28072013189 Switch II region; other site 28072013190 GTP/Mg2+ binding site [chemical binding]; other site 28072013191 G4 box; other site 28072013192 G5 box; other site 28072013193 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 28072013194 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 28072013195 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 28072013196 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 28072013197 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 28072013198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072013199 NAD(P) binding site [chemical binding]; other site 28072013200 active site 28072013201 deoxyhypusine synthase-like protein; Provisional; Region: PRK00770 28072013202 deoxyhypusine synthase; Region: dhys; TIGR00321 28072013203 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 28072013204 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 28072013205 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 28072013206 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 28072013207 homodimer interface [polypeptide binding]; other site 28072013208 Walker A motif; other site 28072013209 ATP binding site [chemical binding]; other site 28072013210 hydroxycobalamin binding site [chemical binding]; other site 28072013211 Walker B motif; other site 28072013212 S-layer homology domain; Region: SLH; pfam00395 28072013213 S-layer homology domain; Region: SLH; pfam00395 28072013214 S-layer homology domain; Region: SLH; pfam00395 28072013215 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 28072013216 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 28072013217 TPP-binding site; other site 28072013218 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 28072013219 PYR/PP interface [polypeptide binding]; other site 28072013220 dimer interface [polypeptide binding]; other site 28072013221 TPP binding site [chemical binding]; other site 28072013222 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 28072013223 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 28072013224 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 28072013225 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 28072013226 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 28072013227 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 28072013228 Phosphoglycerate kinase; Region: PGK; pfam00162 28072013229 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 28072013230 substrate binding site [chemical binding]; other site 28072013231 hinge regions; other site 28072013232 ADP binding site [chemical binding]; other site 28072013233 catalytic site [active] 28072013234 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072013235 Ligand Binding Site [chemical binding]; other site 28072013236 amidase; Provisional; Region: PRK09201 28072013237 Amidase; Region: Amidase; cl11426 28072013238 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 28072013239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 28072013240 KGK domain; Region: KGK; pfam08872 28072013241 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 28072013242 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072013243 catalytic residues [active] 28072013244 Uncharacterized conserved protein [Function unknown]; Region: COG3391 28072013245 glutaminase; Provisional; Region: PRK00971 28072013246 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 28072013247 photosystem I P700 chlorophyll a apoprotein A1; Region: psaA; CHL00056 28072013248 photosystem I P700 chlorophyll a apoprotein A2; Provisional; Region: psaB; PRK13199 28072013249 MafB19-like deaminase; Region: MafB19-deam; pfam14437 28072013250 Immunity protein Imm1; Region: Imm1; pfam14430 28072013251 Protein of unknown function (DUF433); Region: DUF433; cl01030 28072013252 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 28072013253 arginine-tRNA ligase; Region: PLN02286 28072013254 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 28072013255 active site 28072013256 HIGH motif; other site 28072013257 KMSK motif region; other site 28072013258 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 28072013259 tRNA binding surface [nucleotide binding]; other site 28072013260 anticodon binding site; other site 28072013261 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 28072013262 Peptidase family M50; Region: Peptidase_M50; pfam02163 28072013263 active site 28072013264 putative substrate binding region [chemical binding]; other site 28072013265 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 28072013266 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 28072013267 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 28072013268 dimerization interface [polypeptide binding]; other site 28072013269 active site 28072013270 metal binding site [ion binding]; metal-binding site 28072013271 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 28072013272 dsRNA binding site [nucleotide binding]; other site 28072013273 photochlorophyllide reductase subunit B; Region: chlB; CHL00076 28072013274 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 28072013275 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 28072013276 AAA ATPase domain; Region: AAA_16; pfam13191 28072013277 NACHT domain; Region: NACHT; pfam05729 28072013278 TPR repeat; Region: TPR_11; pfam13414 28072013279 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072013280 TPR motif; other site 28072013281 binding surface 28072013282 TPR repeat; Region: TPR_11; pfam13414 28072013283 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 28072013284 dinuclear metal binding motif [ion binding]; other site 28072013285 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 28072013286 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 28072013287 catalytic residue [active] 28072013288 putative FPP diphosphate binding site; other site 28072013289 putative FPP binding hydrophobic cleft; other site 28072013290 dimer interface [polypeptide binding]; other site 28072013291 putative IPP diphosphate binding site; other site 28072013292 tyramine oxidase; Provisional; Region: tynA; PRK11504 28072013293 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 28072013294 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 28072013295 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 28072013296 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072013297 putative active site [active] 28072013298 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072013299 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072013300 binding surface 28072013301 TPR motif; other site 28072013302 TPR repeat; Region: TPR_11; pfam13414 28072013303 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072013304 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 28072013305 substrate binding pocket [chemical binding]; other site 28072013306 membrane-bound complex binding site; other site 28072013307 hinge residues; other site 28072013308 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 28072013309 23S rRNA binding site [nucleotide binding]; other site 28072013310 L21 binding site [polypeptide binding]; other site 28072013311 L13 binding site [polypeptide binding]; other site 28072013312 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 28072013313 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 28072013314 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 28072013315 Phosphotransferase enzyme family; Region: APH; pfam01636 28072013316 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 28072013317 active site 28072013318 ATP binding site [chemical binding]; other site 28072013319 substrate binding site [chemical binding]; other site 28072013320 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 28072013321 active site 28072013322 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 28072013323 NAD(P) binding pocket [chemical binding]; other site 28072013324 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 28072013325 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 28072013326 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 28072013327 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 28072013328 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 28072013329 Walker A motif; other site 28072013330 ATP binding site [chemical binding]; other site 28072013331 Walker B motif; other site 28072013332 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 28072013333 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 28072013334 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 28072013335 Walker A motif; other site 28072013336 ATP binding site [chemical binding]; other site 28072013337 Walker B motif; other site 28072013338 GrpE; Region: GrpE; pfam01025 28072013339 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 28072013340 dimer interface [polypeptide binding]; other site 28072013341 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 28072013342 molecular chaperone DnaK; Provisional; Region: PRK13411 28072013343 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 28072013344 nucleotide binding site [chemical binding]; other site 28072013345 NEF interaction site [polypeptide binding]; other site 28072013346 SBD interface [polypeptide binding]; other site 28072013347 chaperone protein DnaJ; Provisional; Region: PRK14293 28072013348 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072013349 HSP70 interaction site [polypeptide binding]; other site 28072013350 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 28072013351 Zn binding sites [ion binding]; other site 28072013352 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 28072013353 dimer interface [polypeptide binding]; other site 28072013354 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 28072013355 CPxP motif; other site 28072013356 GTPase RsgA; Reviewed; Region: PRK12289 28072013357 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 28072013358 RNA binding site [nucleotide binding]; other site 28072013359 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 28072013360 GTPase/Zn-binding domain interface [polypeptide binding]; other site 28072013361 GTP/Mg2+ binding site [chemical binding]; other site 28072013362 G4 box; other site 28072013363 G5 box; other site 28072013364 G1 box; other site 28072013365 Switch I region; other site 28072013366 G2 box; other site 28072013367 G3 box; other site 28072013368 Switch II region; other site 28072013369 GIY-YIG domain found in CAXIP1-like proteins, iron-sulfur cluster assembly proteins, and similar proteins; Region: GIY-YIG_AtGrxS16_like; cd10450 28072013370 GIY-YIG motif/motif A; other site 28072013371 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072013372 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072013373 active site 28072013374 ATP binding site [chemical binding]; other site 28072013375 substrate binding site [chemical binding]; other site 28072013376 activation loop (A-loop); other site 28072013377 YARHG domain; Region: YARHG; pfam13308 28072013378 Response regulator receiver domain; Region: Response_reg; pfam00072 28072013379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072013380 active site 28072013381 phosphorylation site [posttranslational modification] 28072013382 intermolecular recognition site; other site 28072013383 dimerization interface [polypeptide binding]; other site 28072013384 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072013385 dimer interface [polypeptide binding]; other site 28072013386 phosphorylation site [posttranslational modification] 28072013387 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072013388 ATP binding site [chemical binding]; other site 28072013389 Mg2+ binding site [ion binding]; other site 28072013390 G-X-G motif; other site 28072013391 Cache domain; Region: Cache_1; pfam02743 28072013392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072013393 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 28072013394 dimerization interface [polypeptide binding]; other site 28072013395 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072013396 dimer interface [polypeptide binding]; other site 28072013397 phosphorylation site [posttranslational modification] 28072013398 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072013399 ATP binding site [chemical binding]; other site 28072013400 Mg2+ binding site [ion binding]; other site 28072013401 G-X-G motif; other site 28072013402 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 28072013403 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072013404 Walker A/P-loop; other site 28072013405 ATP binding site [chemical binding]; other site 28072013406 Q-loop/lid; other site 28072013407 ABC transporter signature motif; other site 28072013408 Walker B; other site 28072013409 D-loop; other site 28072013410 H-loop/switch region; other site 28072013411 ABC-2 type transporter; Region: ABC2_membrane; cl17235 28072013412 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 28072013413 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 28072013414 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 28072013415 catalytic triad [active] 28072013416 cobyric acid synthase; Provisional; Region: PRK00784 28072013417 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 28072013418 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 28072013419 catalytic triad [active] 28072013420 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 28072013421 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072013422 catalytic loop [active] 28072013423 iron binding site [ion binding]; other site 28072013424 YcfA-like protein; Region: YcfA; cl00752 28072013425 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 28072013426 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 28072013427 putative hydrophobic ligand binding site [chemical binding]; other site 28072013428 9,9'-di-cis-zeta-carotene desaturase; Region: zeta_caro_desat; TIGR02732 28072013429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072013430 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 28072013431 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 28072013432 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 28072013433 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072013434 binding surface 28072013435 TPR motif; other site 28072013436 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 28072013437 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 28072013438 putative NAD(P) binding site [chemical binding]; other site 28072013439 putative active site [active] 28072013440 hypothetical protein; Validated; Region: PRK07413 28072013441 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 28072013442 Walker A motif; other site 28072013443 homodimer interface [polypeptide binding]; other site 28072013444 ATP binding site [chemical binding]; other site 28072013445 hydroxycobalamin binding site [chemical binding]; other site 28072013446 Walker B motif; other site 28072013447 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 28072013448 Walker A motif; other site 28072013449 homodimer interface [polypeptide binding]; other site 28072013450 ATP binding site [chemical binding]; other site 28072013451 hydroxycobalamin binding site [chemical binding]; other site 28072013452 Walker B motif; other site 28072013453 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 28072013454 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072013455 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072013456 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072013457 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072013458 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072013459 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072013460 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072013461 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072013462 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072013463 active site 28072013464 ATP binding site [chemical binding]; other site 28072013465 substrate binding site [chemical binding]; other site 28072013466 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072013467 substrate binding site [chemical binding]; other site 28072013468 activation loop (A-loop); other site 28072013469 activation loop (A-loop); other site 28072013470 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 28072013471 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072013472 S-adenosylmethionine binding site [chemical binding]; other site 28072013473 phosphatidate cytidylyltransferase; Region: PLN02953 28072013474 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 28072013475 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 28072013476 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 28072013477 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 28072013478 RNA binding surface [nucleotide binding]; other site 28072013479 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 28072013480 active site 28072013481 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 28072013482 Helix-turn-helix domain; Region: HTH_25; pfam13413 28072013483 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 28072013484 4-alpha-glucanotransferase; Provisional; Region: PRK14508 28072013485 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 28072013486 nudix motif; other site 28072013487 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 28072013488 homotrimer interaction site [polypeptide binding]; other site 28072013489 putative active site [active] 28072013490 pantothenate kinase; Reviewed; Region: PRK13331 28072013491 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 28072013492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072013493 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 28072013494 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 28072013495 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072013496 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 28072013497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072013498 NACHT domain; Region: NACHT; pfam05729 28072013499 Walker A/P-loop; other site 28072013500 ATP binding site [chemical binding]; other site 28072013501 HEAT repeats; Region: HEAT_2; pfam13646 28072013502 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 28072013503 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 28072013504 HEAT repeats; Region: HEAT_2; pfam13646 28072013505 protein binding surface [polypeptide binding]; other site 28072013506 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 28072013507 putative active site [active] 28072013508 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072013509 putative active site [active] 28072013510 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 28072013511 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072013512 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 28072013513 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 28072013514 Caspase domain; Region: Peptidase_C14; pfam00656 28072013515 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 28072013516 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 28072013517 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 28072013518 M42 glutamyl aminopeptidase; Region: Peptidase_M42; pfam05343 28072013519 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 28072013520 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 28072013521 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072013522 Ca2+ binding site [ion binding]; other site 28072013523 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072013524 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072013525 Ca2+ binding site [ion binding]; other site 28072013526 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072013527 Ca2+ binding site [ion binding]; other site 28072013528 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072013529 Putative Ig domain; Region: He_PIG; pfam05345 28072013530 Cadherin repeat-like domain; Region: CA_like; cl15786 28072013531 Ca2+ binding site [ion binding]; other site 28072013532 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072013533 Ca2+ binding site [ion binding]; other site 28072013534 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072013535 Ca2+ binding site [ion binding]; other site 28072013536 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072013537 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 28072013538 metal ion-dependent adhesion site (MIDAS); other site 28072013539 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072013540 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072013541 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072013542 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072013543 RHS Repeat; Region: RHS_repeat; pfam05593 28072013544 RHS Repeat; Region: RHS_repeat; cl11982 28072013545 RHS Repeat; Region: RHS_repeat; pfam05593 28072013546 RHS Repeat; Region: RHS_repeat; pfam05593 28072013547 RHS Repeat; Region: RHS_repeat; pfam05593 28072013548 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072013549 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072013550 RHS Repeat; Region: RHS_repeat; pfam05593 28072013551 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 28072013552 yiaA/B two helix domain; Region: YiaAB; cl01759 28072013553 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 28072013554 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 28072013555 active site 28072013556 homodimer interface [polypeptide binding]; other site 28072013557 Bacterial SH3 domain; Region: SH3_3; pfam08239 28072013558 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 28072013559 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072013560 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072013561 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072013562 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072013563 glycogen synthase; Provisional; Region: glgA; PRK00654 28072013564 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 28072013565 ADP-binding pocket [chemical binding]; other site 28072013566 homodimer interface [polypeptide binding]; other site 28072013567 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 28072013568 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 28072013569 domain interfaces; other site 28072013570 active site 28072013571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 28072013572 putative lipid kinase; Reviewed; Region: PRK00861 28072013573 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 28072013574 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072013575 active site 28072013576 metal binding site [ion binding]; metal-binding site 28072013577 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072013578 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072013579 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 28072013580 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 28072013581 iron-sulfur cluster [ion binding]; other site 28072013582 [2Fe-2S] cluster binding site [ion binding]; other site 28072013583 Uncharacterized conserved protein [Function unknown]; Region: COG3349 28072013584 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 28072013585 Surface antigen; Region: Bac_surface_Ag; pfam01103 28072013586 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 28072013587 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 28072013588 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 28072013589 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 28072013590 Walker A/P-loop; other site 28072013591 ATP binding site [chemical binding]; other site 28072013592 Q-loop/lid; other site 28072013593 ABC transporter signature motif; other site 28072013594 Walker B; other site 28072013595 D-loop; other site 28072013596 H-loop/switch region; other site 28072013597 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 28072013598 Predicted membrane protein [Function unknown]; Region: COG4872 28072013599 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 28072013600 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 28072013601 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072013602 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072013603 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 28072013604 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072013605 DNA binding residues [nucleotide binding] 28072013606 dimerization interface [polypeptide binding]; other site 28072013607 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 28072013608 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072013609 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072013610 ligand binding site [chemical binding]; other site 28072013611 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072013612 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072013613 putative active site [active] 28072013614 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072013615 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 28072013616 Walker A/P-loop; other site 28072013617 ATP binding site [chemical binding]; other site 28072013618 Q-loop/lid; other site 28072013619 ABC transporter signature motif; other site 28072013620 Walker B; other site 28072013621 D-loop; other site 28072013622 H-loop/switch region; other site 28072013623 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 28072013624 DNA photolyase; Region: DNA_photolyase; pfam00875 28072013625 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 28072013626 Lipoxygenase; Region: Lipoxygenase; pfam00305 28072013627 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 28072013628 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 28072013629 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 28072013630 Heat induced stress protein YflT; Region: YflT; pfam11181 28072013631 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 28072013632 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 28072013633 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 28072013634 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 28072013635 dimer interface [polypeptide binding]; other site 28072013636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072013637 catalytic residue [active] 28072013638 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 28072013639 putative catalytic residues [active] 28072013640 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 28072013641 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 28072013642 Subunit I/III interface [polypeptide binding]; other site 28072013643 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 28072013644 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 28072013645 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 28072013646 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 28072013647 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 28072013648 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 28072013649 4Fe-4S binding domain; Region: Fer4; pfam00037 28072013650 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 28072013651 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072013652 non-specific DNA binding site [nucleotide binding]; other site 28072013653 salt bridge; other site 28072013654 sequence-specific DNA binding site [nucleotide binding]; other site 28072013655 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 28072013656 HflK protein; Region: hflK; TIGR01933 28072013657 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 28072013658 Active_site [active] 28072013659 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072013660 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072013661 active site 28072013662 ATP binding site [chemical binding]; other site 28072013663 substrate binding site [chemical binding]; other site 28072013664 activation loop (A-loop); other site 28072013665 Uncharacterized conserved protein [Function unknown]; Region: COG1262 28072013666 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 28072013667 Protein of unknown function (DUF433); Region: DUF433; cl01030 28072013668 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072013669 phosphopeptide binding site; other site 28072013670 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072013671 phosphopeptide binding site; other site 28072013672 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072013673 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_3; cd01835 28072013674 active site 28072013675 catalytic triad [active] 28072013676 oxyanion hole [active] 28072013677 GH3 auxin-responsive promoter; Region: GH3; pfam03321 28072013678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072013679 Uncharacterized conserved protein [Function unknown]; Region: COG2442 28072013680 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072013681 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072013682 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 28072013683 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 28072013684 trimer interface [polypeptide binding]; other site 28072013685 active site 28072013686 substrate binding site [chemical binding]; other site 28072013687 CoA binding site [chemical binding]; other site 28072013688 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 28072013689 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 28072013690 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072013691 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 28072013692 [2Fe-2S] cluster binding site [ion binding]; other site 28072013693 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 28072013694 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 28072013695 oligomeric interface; other site 28072013696 putative active site [active] 28072013697 homodimer interface [polypeptide binding]; other site 28072013698 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 28072013699 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072013700 catalytic loop [active] 28072013701 iron binding site [ion binding]; other site 28072013702 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 28072013703 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 28072013704 dinuclear metal binding motif [ion binding]; other site 28072013705 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072013706 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 28072013707 [2Fe-2S] cluster binding site [ion binding]; other site 28072013708 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072013709 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 28072013710 [2Fe-2S] cluster binding site [ion binding]; other site 28072013711 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 28072013712 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 28072013713 iron-sulfur cluster [ion binding]; other site 28072013714 [2Fe-2S] cluster binding site [ion binding]; other site 28072013715 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072013716 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072013717 ligand binding site [chemical binding]; other site 28072013718 flexible hinge region; other site 28072013719 Uracil DNA glycosylase superfamily; Region: UDG; smart00986 28072013720 ligand binding site [chemical binding]; other site 28072013721 active site 28072013722 putative addiction module component, TIGR02574 family; Region: stabl_TIGR02574 28072013723 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 28072013724 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 28072013725 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 28072013726 active site 28072013727 putative substrate binding pocket [chemical binding]; other site 28072013728 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 28072013729 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 28072013730 Predicted ATPase [General function prediction only]; Region: COG4637 28072013731 P-loop containing region of AAA domain; Region: AAA_29; cl17516 28072013732 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072013733 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 28072013734 DXD motif; other site 28072013735 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 28072013736 SnoaL-like domain; Region: SnoaL_3; pfam13474 28072013737 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 28072013738 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 28072013739 Malic enzyme, N-terminal domain; Region: malic; pfam00390 28072013740 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 28072013741 putative NAD(P) binding site [chemical binding]; other site 28072013742 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 28072013743 protein I interface; other site 28072013744 D2 interface; other site 28072013745 protein T interface; other site 28072013746 chlorophyll binding site; other site 28072013747 beta carotene binding site; other site 28072013748 pheophytin binding site; other site 28072013749 manganese-stabilizing polypeptide interface; other site 28072013750 CP43 interface; other site 28072013751 protein L interface; other site 28072013752 oxygen evolving complex binding site; other site 28072013753 bromide binding site; other site 28072013754 quinone binding site; other site 28072013755 Fe binding site [ion binding]; other site 28072013756 core light harvesting interface; other site 28072013757 cytochrome b559 alpha subunit interface; other site 28072013758 cytochrome c-550 interface; other site 28072013759 protein J interface; other site 28072013760 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 28072013761 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 28072013762 phytoene desaturase; Region: phytoene_desat; TIGR02731 28072013763 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072013764 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 28072013765 active site lid residues [active] 28072013766 substrate binding pocket [chemical binding]; other site 28072013767 catalytic residues [active] 28072013768 substrate-Mg2+ binding site; other site 28072013769 aspartate-rich region 1; other site 28072013770 aspartate-rich region 2; other site 28072013771 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 28072013772 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 28072013773 putative ligand binding site [chemical binding]; other site 28072013774 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 28072013775 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072013776 active site 28072013777 catalytic tetrad [active] 28072013778 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 28072013779 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 28072013780 Domain of unknown function DUF21; Region: DUF21; pfam01595 28072013781 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 28072013782 Transporter associated domain; Region: CorC_HlyC; smart01091 28072013783 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 28072013784 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 28072013785 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072013786 ATP binding site [chemical binding]; other site 28072013787 putative Mg++ binding site [ion binding]; other site 28072013788 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072013789 nucleotide binding region [chemical binding]; other site 28072013790 ATP-binding site [chemical binding]; other site 28072013791 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 28072013792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072013793 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 28072013794 YcfA-like protein; Region: YcfA; pfam07927 28072013795 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 28072013796 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 28072013797 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 28072013798 active site 28072013799 trimer interface [polypeptide binding]; other site 28072013800 allosteric site; other site 28072013801 active site lid [active] 28072013802 hexamer (dimer of trimers) interface [polypeptide binding]; other site 28072013803 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 28072013804 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072013805 active site 28072013806 motif I; other site 28072013807 motif II; other site 28072013808 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 28072013809 putative catalytic site [active] 28072013810 putative metal binding site [ion binding]; other site 28072013811 putative phosphate binding site [ion binding]; other site 28072013812 Uncharacterized conserved protein [Function unknown]; Region: COG1434 28072013813 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 28072013814 putative active site [active] 28072013815 Lactoylglutathione lyase and related lyases [Amino acid transport and metabolism]; Region: GloA; COG0346 28072013816 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 28072013817 CHASE2 domain; Region: CHASE2; pfam05226 28072013818 Protein kinase domain; Region: Pkinase; pfam00069 28072013819 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072013820 active site 28072013821 ATP binding site [chemical binding]; other site 28072013822 substrate binding site [chemical binding]; other site 28072013823 activation loop (A-loop); other site 28072013824 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 28072013825 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 28072013826 active site 28072013827 FMN binding site [chemical binding]; other site 28072013828 substrate binding site [chemical binding]; other site 28072013829 homotetramer interface [polypeptide binding]; other site 28072013830 catalytic residue [active] 28072013831 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072013832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072013833 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 28072013834 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072013835 N-terminal plug; other site 28072013836 ligand-binding site [chemical binding]; other site 28072013837 tellurium resistance terB-like protein; Region: terB_like; cd07177 28072013838 metal binding site [ion binding]; metal-binding site 28072013839 16S rRNA methyltransferase B; Provisional; Region: PRK14901 28072013840 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 28072013841 putative RNA binding site [nucleotide binding]; other site 28072013842 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072013843 S-adenosylmethionine binding site [chemical binding]; other site 28072013844 Alkaline and neutral invertase; Region: Glyco_hydro_100; pfam12899 28072013845 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 28072013846 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 28072013847 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 28072013848 GxxExxY protein; Region: GxxExxY; TIGR04256 28072013849 Aluminium resistance protein; Region: Alum_res; pfam06838 28072013850 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 28072013851 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 28072013852 Fatty acid desaturase; Region: FA_desaturase; pfam00487 28072013853 Di-iron ligands [ion binding]; other site 28072013854 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 28072013855 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 28072013856 putative di-iron ligands [ion binding]; other site 28072013857 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 28072013858 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 28072013859 putative di-iron ligands [ion binding]; other site 28072013860 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072013861 putative active site [active] 28072013862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072013863 Coenzyme A binding pocket [chemical binding]; other site 28072013864 tellurium resistance terB-like protein; Region: terB_like; cd07177 28072013865 metal binding site [ion binding]; metal-binding site 28072013866 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072013867 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 28072013868 G1 box; other site 28072013869 G1 box; other site 28072013870 GTP/Mg2+ binding site [chemical binding]; other site 28072013871 GTP/Mg2+ binding site [chemical binding]; other site 28072013872 G2 box; other site 28072013873 Switch I region; other site 28072013874 G3 box; other site 28072013875 Switch II region; other site 28072013876 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072013877 G1 box; other site 28072013878 GTP/Mg2+ binding site [chemical binding]; other site 28072013879 G2 box; other site 28072013880 G3 box; other site 28072013881 Switch II region; other site 28072013882 G4 box; other site 28072013883 G5 box; other site 28072013884 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 28072013885 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 28072013886 putative catalytic cysteine [active] 28072013887 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 28072013888 homopentamer interface [polypeptide binding]; other site 28072013889 active site 28072013890 photosystem II reaction center protein Z; Provisional; Region: psbZ; PRK02576 28072013891 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 28072013892 DHH family; Region: DHH; pfam01368 28072013893 FOG: CBS domain [General function prediction only]; Region: COG0517 28072013894 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 28072013895 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 28072013896 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 28072013897 active site 28072013898 NTP binding site [chemical binding]; other site 28072013899 metal binding triad [ion binding]; metal-binding site 28072013900 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 28072013901 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 28072013902 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 28072013903 ABC transporter; Region: ABC_tran_2; pfam12848 28072013904 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 28072013905 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 28072013906 ABC1 family; Region: ABC1; cl17513 28072013907 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 28072013908 active site 28072013909 Phycobilisome degradation protein nblA; Region: NblA; pfam04485 28072013910 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072013911 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072013912 active site 28072013913 ATP binding site [chemical binding]; other site 28072013914 substrate binding site [chemical binding]; other site 28072013915 activation loop (A-loop); other site 28072013916 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 28072013917 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 28072013918 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 28072013919 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 28072013920 Ligand Binding Site [chemical binding]; other site 28072013921 MltA specific insert domain; Region: MltA; cl08398 28072013922 4-aminobutyrate aminotransferase; Provisional; Region: PRK05769 28072013923 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 28072013924 inhibitor-cofactor binding pocket; inhibition site 28072013925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072013926 catalytic residue [active] 28072013927 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 28072013928 RNA repair, ligase-Pnkp-associating, region of Hen1; Region: Hen1_L; pfam12623 28072013929 3' terminal RNA ribose 2'-O-methyltransferase Hen1; Region: bacter_Hen1; TIGR04074 28072013930 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072013931 S-adenosylmethionine binding site [chemical binding]; other site 28072013932 polynucleotide kinase-phosphatase; Region: bacter_Pnkp; TIGR04075 28072013933 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 28072013934 active site 28072013935 metal binding site [ion binding]; metal-binding site 28072013936 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 28072013937 FOG: CBS domain [General function prediction only]; Region: COG0517 28072013938 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 28072013939 PAS domain S-box; Region: sensory_box; TIGR00229 28072013940 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072013941 putative active site [active] 28072013942 heme pocket [chemical binding]; other site 28072013943 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072013944 GAF domain; Region: GAF; pfam01590 28072013945 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072013946 PAS domain; Region: PAS_9; pfam13426 28072013947 putative active site [active] 28072013948 heme pocket [chemical binding]; other site 28072013949 GAF domain; Region: GAF; pfam01590 28072013950 PAS domain S-box; Region: sensory_box; TIGR00229 28072013951 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072013952 putative active site [active] 28072013953 heme pocket [chemical binding]; other site 28072013954 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072013955 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072013956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072013957 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072013958 dimer interface [polypeptide binding]; other site 28072013959 phosphorylation site [posttranslational modification] 28072013960 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072013961 ATP binding site [chemical binding]; other site 28072013962 Mg2+ binding site [ion binding]; other site 28072013963 G-X-G motif; other site 28072013964 Response regulator receiver domain; Region: Response_reg; pfam00072 28072013965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072013966 active site 28072013967 phosphorylation site [posttranslational modification] 28072013968 intermolecular recognition site; other site 28072013969 dimerization interface [polypeptide binding]; other site 28072013970 Response regulator receiver domain; Region: Response_reg; pfam00072 28072013971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072013972 active site 28072013973 phosphorylation site [posttranslational modification] 28072013974 intermolecular recognition site; other site 28072013975 dimerization interface [polypeptide binding]; other site 28072013976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072013977 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072013978 dimer interface [polypeptide binding]; other site 28072013979 phosphorylation site [posttranslational modification] 28072013980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072013981 ATP binding site [chemical binding]; other site 28072013982 Mg2+ binding site [ion binding]; other site 28072013983 G-X-G motif; other site 28072013984 putative bicarbonate transporter, IctB family; Region: 2A73; TIGR00947 28072013985 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 28072013986 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072013987 GAF domain; Region: GAF; pfam01590 28072013988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072013989 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072013990 dimer interface [polypeptide binding]; other site 28072013991 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 28072013992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072013993 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 28072013994 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 28072013995 inhibitor-cofactor binding pocket; inhibition site 28072013996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072013997 catalytic residue [active] 28072013998 cyanoexosortase B; Region: cyanoexo_CrtB; TIGR04156 28072013999 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 28072014000 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 28072014001 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 28072014002 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 28072014003 SLBB domain; Region: SLBB; pfam10531 28072014004 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 28072014005 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 28072014006 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 28072014007 Nucleotide binding site [chemical binding]; other site 28072014008 DTAP/Switch II; other site 28072014009 Switch I; other site 28072014010 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 28072014011 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 28072014012 active site 28072014013 metal binding site [ion binding]; metal-binding site 28072014014 interdomain interaction site; other site 28072014015 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 28072014016 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 28072014017 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 28072014018 active site 28072014019 proton extrusion protein PcxA; Provisional; Region: PRK02507 28072014020 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072014021 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 28072014022 putative metal binding site; other site 28072014023 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014024 TPR motif; other site 28072014025 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072014026 binding surface 28072014027 TPR repeat; Region: TPR_11; pfam13414 28072014028 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014029 binding surface 28072014030 TPR repeat; Region: TPR_11; pfam13414 28072014031 TPR motif; other site 28072014032 TPR repeat; Region: TPR_11; pfam13414 28072014033 aspartate aminotransferase; Provisional; Region: PRK05764 28072014034 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072014035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072014036 homodimer interface [polypeptide binding]; other site 28072014037 catalytic residue [active] 28072014038 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 28072014039 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 28072014040 putative active site; other site 28072014041 catalytic residue [active] 28072014042 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 28072014043 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 28072014044 putative active site [active] 28072014045 putative metal binding residues [ion binding]; other site 28072014046 signature motif; other site 28072014047 putative dimer interface [polypeptide binding]; other site 28072014048 putative phosphate binding site [ion binding]; other site 28072014049 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 28072014050 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 28072014051 substrate binding site [chemical binding]; other site 28072014052 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 28072014053 substrate binding site [chemical binding]; other site 28072014054 ligand binding site [chemical binding]; other site 28072014055 XisH protein; Region: XisH; pfam08814 28072014056 XisI protein; Region: XisI; pfam08869 28072014057 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 28072014058 putative active site [active] 28072014059 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072014060 non-specific DNA binding site [nucleotide binding]; other site 28072014061 salt bridge; other site 28072014062 sequence-specific DNA binding site [nucleotide binding]; other site 28072014063 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 28072014064 putative active site [active] 28072014065 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 28072014066 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 28072014067 Walker A motif; other site 28072014068 ATP binding site [chemical binding]; other site 28072014069 Walker B motif; other site 28072014070 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 28072014071 tetramer interface [polypeptide binding]; other site 28072014072 dimer interface [polypeptide binding]; other site 28072014073 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 28072014074 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 28072014075 catalytic loop [active] 28072014076 iron binding site [ion binding]; other site 28072014077 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 28072014078 CAAX protease self-immunity; Region: Abi; pfam02517 28072014079 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 28072014080 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 28072014081 active site 28072014082 substrate binding site [chemical binding]; other site 28072014083 cosubstrate binding site; other site 28072014084 catalytic site [active] 28072014085 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 28072014086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072014087 dimer interface [polypeptide binding]; other site 28072014088 conserved gate region; other site 28072014089 putative PBP binding loops; other site 28072014090 ABC-ATPase subunit interface; other site 28072014091 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 28072014092 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 28072014093 ATP-grasp domain; Region: ATP-grasp_4; cl17255 28072014094 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 28072014095 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 28072014096 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 28072014097 proposed catalytic triad [active] 28072014098 active site nucleophile [active] 28072014099 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 28072014100 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 28072014101 homotrimer interaction site [polypeptide binding]; other site 28072014102 zinc binding site [ion binding]; other site 28072014103 CDP-binding sites; other site 28072014104 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 28072014105 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 28072014106 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 28072014107 AIR carboxylase; Region: AIRC; smart01001 28072014108 argininosuccinate lyase; Provisional; Region: PRK00855 28072014109 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 28072014110 active sites [active] 28072014111 tetramer interface [polypeptide binding]; other site 28072014112 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 28072014113 nudix motif; other site 28072014114 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 28072014115 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072014116 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 28072014117 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072014118 substrate binding pocket [chemical binding]; other site 28072014119 membrane-bound complex binding site; other site 28072014120 hinge residues; other site 28072014121 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 28072014122 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 28072014123 Walker A/P-loop; other site 28072014124 ATP binding site [chemical binding]; other site 28072014125 Q-loop/lid; other site 28072014126 ABC transporter signature motif; other site 28072014127 Walker B; other site 28072014128 D-loop; other site 28072014129 H-loop/switch region; other site 28072014130 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 28072014131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 28072014132 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 28072014133 dimer interface [polypeptide binding]; other site 28072014134 [2Fe-2S] cluster binding site [ion binding]; other site 28072014135 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 28072014136 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 28072014137 dimerization interface [polypeptide binding]; other site 28072014138 DPS ferroxidase diiron center [ion binding]; other site 28072014139 ion pore; other site 28072014140 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 28072014141 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 28072014142 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 28072014143 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 28072014144 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 28072014145 ATP-grasp domain; Region: ATP-grasp_4; cl17255 28072014146 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 28072014147 IMP binding site; other site 28072014148 dimer interface [polypeptide binding]; other site 28072014149 interdomain contacts; other site 28072014150 partial ornithine binding site; other site 28072014151 RNA polymerase sigma factor SigD; Validated; Region: PRK07405 28072014152 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 28072014153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 28072014154 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 28072014155 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 28072014156 DNA binding residues [nucleotide binding] 28072014157 Protein of unknown function (DUF760); Region: DUF760; pfam05542 28072014158 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 28072014159 active site 28072014160 8-oxo-dGMP binding site [chemical binding]; other site 28072014161 nudix motif; other site 28072014162 metal binding site [ion binding]; metal-binding site 28072014163 FOG: CBS domain [General function prediction only]; Region: COG0517 28072014164 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 28072014165 HEAT repeats; Region: HEAT_2; pfam13646 28072014166 HEAT repeats; Region: HEAT_2; pfam13646 28072014167 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 28072014168 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 28072014169 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 28072014170 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 28072014171 ABC-ATPase subunit interface; other site 28072014172 putative PBP binding regions; other site 28072014173 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072014174 dimerization interface [polypeptide binding]; other site 28072014175 putative DNA binding site [nucleotide binding]; other site 28072014176 putative Zn2+ binding site [ion binding]; other site 28072014177 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 28072014178 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 28072014179 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 28072014180 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 28072014181 metal binding site [ion binding]; metal-binding site 28072014182 S-layer homology domain; Region: SLH; pfam00395 28072014183 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 28072014184 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 28072014185 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 28072014186 tetramerization interface [polypeptide binding]; other site 28072014187 active site 28072014188 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 28072014189 dimer interface [polypeptide binding]; other site 28072014190 substrate binding site [chemical binding]; other site 28072014191 metal binding sites [ion binding]; metal-binding site 28072014192 Uncharacterized conserved protein [Function unknown]; Region: COG2006 28072014193 Domain of unknown function (DUF362); Region: DUF362; pfam04015 28072014194 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 28072014195 Aspartase; Region: Aspartase; cd01357 28072014196 active sites [active] 28072014197 tetramer interface [polypeptide binding]; other site 28072014198 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072014199 putative active site [active] 28072014200 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 28072014201 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 28072014202 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 28072014203 NAD binding site [chemical binding]; other site 28072014204 substrate binding site [chemical binding]; other site 28072014205 homodimer interface [polypeptide binding]; other site 28072014206 active site 28072014207 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072014208 putative active site [active] 28072014209 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 28072014210 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 28072014211 putative NAD(P) binding site [chemical binding]; other site 28072014212 active site 28072014213 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 28072014214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072014215 putative ADP-binding pocket [chemical binding]; other site 28072014216 Bacterial sugar transferase; Region: Bac_transf; pfam02397 28072014217 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 28072014218 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 28072014219 NADP-binding site; other site 28072014220 homotetramer interface [polypeptide binding]; other site 28072014221 substrate binding site [chemical binding]; other site 28072014222 homodimer interface [polypeptide binding]; other site 28072014223 active site 28072014224 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 28072014225 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 28072014226 NADP binding site [chemical binding]; other site 28072014227 active site 28072014228 putative substrate binding site [chemical binding]; other site 28072014229 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 28072014230 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 28072014231 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 28072014232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072014233 dimer interface [polypeptide binding]; other site 28072014234 conserved gate region; other site 28072014235 putative PBP binding loops; other site 28072014236 ABC-ATPase subunit interface; other site 28072014237 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 28072014238 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072014239 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072014240 ligand binding site [chemical binding]; other site 28072014241 flexible hinge region; other site 28072014242 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 28072014243 putative switch regulator; other site 28072014244 non-specific DNA interactions [nucleotide binding]; other site 28072014245 DNA binding site [nucleotide binding] 28072014246 sequence specific DNA binding site [nucleotide binding]; other site 28072014247 putative cAMP binding site [chemical binding]; other site 28072014248 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 28072014249 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 28072014250 putative dimer interface [polypeptide binding]; other site 28072014251 active site pocket [active] 28072014252 putative cataytic base [active] 28072014253 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 28072014254 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 28072014255 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 28072014256 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 28072014257 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 28072014258 N-acetyl-D-glucosamine binding site [chemical binding]; other site 28072014259 catalytic residue [active] 28072014260 Alkaline and neutral invertase; Region: Glyco_hydro_100; pfam12899 28072014261 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072014262 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072014263 S-adenosylmethionine binding site [chemical binding]; other site 28072014264 L-type amino acid transporter; Region: 2A0308; TIGR00911 28072014265 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 28072014266 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 28072014267 NodB motif; other site 28072014268 active site 28072014269 catalytic site [active] 28072014270 metal binding site [ion binding]; metal-binding site 28072014271 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 28072014272 NMT1-like family; Region: NMT1_2; pfam13379 28072014273 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 28072014274 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 28072014275 Walker A/P-loop; other site 28072014276 ATP binding site [chemical binding]; other site 28072014277 Q-loop/lid; other site 28072014278 ABC transporter signature motif; other site 28072014279 Walker B; other site 28072014280 D-loop; other site 28072014281 H-loop/switch region; other site 28072014282 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 28072014283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072014284 dimer interface [polypeptide binding]; other site 28072014285 conserved gate region; other site 28072014286 putative PBP binding loops; other site 28072014287 ABC-ATPase subunit interface; other site 28072014288 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 28072014289 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 28072014290 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 28072014291 Ligand Binding Site [chemical binding]; other site 28072014292 AMIN domain; Region: AMIN; pfam11741 28072014293 Protein of unknown function (DUF3172); Region: DUF3172; pfam11371 28072014294 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 28072014295 ABC-2 type transporter; Region: ABC2_membrane; cl17235 28072014296 NADH-quinone oxidoreductase cyanobacterial subunit N; Region: NdhN; pfam11909 28072014297 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 28072014298 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 28072014299 ribosomal protein L23; Region: rpl23; CHL00030 28072014300 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 28072014301 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 28072014302 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 28072014303 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 28072014304 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 28072014305 putative translocon binding site; other site 28072014306 protein-rRNA interface [nucleotide binding]; other site 28072014307 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 28072014308 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 28072014309 G-X-X-G motif; other site 28072014310 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 28072014311 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 28072014312 23S rRNA interface [nucleotide binding]; other site 28072014313 5S rRNA interface [nucleotide binding]; other site 28072014314 putative antibiotic binding site [chemical binding]; other site 28072014315 L25 interface [polypeptide binding]; other site 28072014316 L27 interface [polypeptide binding]; other site 28072014317 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 28072014318 23S rRNA interface [nucleotide binding]; other site 28072014319 putative translocon interaction site; other site 28072014320 signal recognition particle (SRP54) interaction site; other site 28072014321 L23 interface [polypeptide binding]; other site 28072014322 trigger factor interaction site; other site 28072014323 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 28072014324 ribosomal protein L14; Region: rpl14; CHL00057 28072014325 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 28072014326 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 28072014327 RNA binding site [nucleotide binding]; other site 28072014328 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 28072014329 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 28072014330 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 28072014331 ribosomal protein S8; Region: rps8; CHL00042 28072014332 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 28072014333 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 28072014334 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 28072014335 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 28072014336 23S rRNA interface [nucleotide binding]; other site 28072014337 L21e interface [polypeptide binding]; other site 28072014338 5S rRNA interface [nucleotide binding]; other site 28072014339 L27 interface [polypeptide binding]; other site 28072014340 L5 interface [polypeptide binding]; other site 28072014341 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 28072014342 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 28072014343 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 28072014344 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 28072014345 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 28072014346 SecY translocase; Region: SecY; pfam00344 28072014347 adenylate kinase; Provisional; Region: adk; PRK02496 28072014348 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 28072014349 AMP-binding site [chemical binding]; other site 28072014350 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 28072014351 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 28072014352 rRNA binding site [nucleotide binding]; other site 28072014353 predicted 30S ribosome binding site; other site 28072014354 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 28072014355 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 28072014356 30S ribosomal protein S13; Region: bact_S13; TIGR03631 28072014357 30S ribosomal protein S11; Validated; Region: PRK05309 28072014358 RNA polymerase alpha subunit; Region: rpoA; CHL00013 28072014359 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 28072014360 alphaNTD - beta interaction site [polypeptide binding]; other site 28072014361 alphaNTD homodimer interface [polypeptide binding]; other site 28072014362 alphaNTD - beta' interaction site [polypeptide binding]; other site 28072014363 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 28072014364 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 28072014365 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 28072014366 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 28072014367 dimerization interface 3.5A [polypeptide binding]; other site 28072014368 active site 28072014369 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 28072014370 23S rRNA interface [nucleotide binding]; other site 28072014371 L3 interface [polypeptide binding]; other site 28072014372 ribosomal protein S9; Region: rps9; CHL00079 28072014373 ribosomal protein L31; Validated; Region: rpl31; CHL00136 28072014374 peptide chain release factor 1; Validated; Region: prfA; PRK00591 28072014375 This domain is found in peptide chain release factors; Region: PCRF; smart00937 28072014376 RF-1 domain; Region: RF-1; pfam00472 28072014377 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072014378 non-specific DNA binding site [nucleotide binding]; other site 28072014379 salt bridge; other site 28072014380 sequence-specific DNA binding site [nucleotide binding]; other site 28072014381 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 28072014382 Methyltransferase domain; Region: Methyltransf_26; pfam13659 28072014383 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072014384 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 28072014385 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 28072014386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072014387 Walker A/P-loop; other site 28072014388 ATP binding site [chemical binding]; other site 28072014389 Q-loop/lid; other site 28072014390 ABC transporter signature motif; other site 28072014391 Walker B; other site 28072014392 D-loop; other site 28072014393 H-loop/switch region; other site 28072014394 ABC transporter; Region: ABC_tran_2; pfam12848 28072014395 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 28072014396 phosphoglyceromutase; Provisional; Region: PRK05434 28072014397 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 28072014398 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 28072014399 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_1; cd04279 28072014400 active site 28072014401 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072014402 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072014403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 28072014404 Transposase; Region: DDE_Tnp_ISL3; pfam01610 28072014405 hypothetical protein; Reviewed; Region: PRK12275 28072014406 four helix bundle protein; Region: TIGR02436 28072014407 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072014408 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072014409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 28072014410 H+ Antiporter protein; Region: 2A0121; TIGR00900 28072014411 putative substrate translocation pore; other site 28072014412 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 28072014413 Recombination protein O N terminal; Region: RecO_N; pfam11967 28072014414 Recombination protein O C terminal; Region: RecO_C; pfam02565 28072014415 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 28072014416 intersubunit interface [polypeptide binding]; other site 28072014417 active site 28072014418 catalytic residue [active] 28072014419 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 28072014420 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072014421 cofactor binding site; other site 28072014422 DNA binding site [nucleotide binding] 28072014423 substrate interaction site [chemical binding]; other site 28072014424 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072014425 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 28072014426 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07234 28072014427 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072014428 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 28072014429 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 28072014430 hypothetical protein; Provisional; Region: PRK07377 28072014431 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12567 28072014432 Phage-related protein [Function unknown]; Region: COG4679 28072014433 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 28072014434 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 28072014435 GTP/Mg2+ binding site [chemical binding]; other site 28072014436 G1 box; other site 28072014437 G2 box; other site 28072014438 Switch I region; other site 28072014439 G3 box; other site 28072014440 Switch II region; other site 28072014441 G4 box; other site 28072014442 Domain of unknown function (DUF697); Region: DUF697; pfam05128 28072014443 Protein of unknown function (DUF3257); Region: DUF3257; pfam11645 28072014444 L-asparaginase II; Region: Asparaginase_II; cl01842 28072014445 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 28072014446 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 28072014447 putative glycosyl transferase; Provisional; Region: PRK10307 28072014448 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 28072014449 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 28072014450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 28072014451 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 28072014452 dimerization interface [polypeptide binding]; other site 28072014453 substrate binding pocket [chemical binding]; other site 28072014454 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 28072014455 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 28072014456 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 28072014457 Walker A/P-loop; other site 28072014458 ATP binding site [chemical binding]; other site 28072014459 Q-loop/lid; other site 28072014460 ABC transporter signature motif; other site 28072014461 Walker B; other site 28072014462 D-loop; other site 28072014463 H-loop/switch region; other site 28072014464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072014465 dimer interface [polypeptide binding]; other site 28072014466 conserved gate region; other site 28072014467 putative PBP binding loops; other site 28072014468 ABC-ATPase subunit interface; other site 28072014469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072014470 dimer interface [polypeptide binding]; other site 28072014471 conserved gate region; other site 28072014472 putative PBP binding loops; other site 28072014473 ABC-ATPase subunit interface; other site 28072014474 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 28072014475 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 28072014476 substrate binding pocket [chemical binding]; other site 28072014477 membrane-bound complex binding site; other site 28072014478 hinge residues; other site 28072014479 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 28072014480 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 28072014481 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072014482 FeS/SAM binding site; other site 28072014483 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 28072014484 anti sigma factor interaction site; other site 28072014485 regulatory phosphorylation site [posttranslational modification]; other site 28072014486 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 28072014487 Bacterial sugar transferase; Region: Bac_transf; pfam02397 28072014488 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 28072014489 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 28072014490 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 28072014491 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 28072014492 photochlorophyllide reductase subunit L; Region: chlL; CHL00072 28072014493 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 28072014494 P-loop; other site 28072014495 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 28072014496 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 28072014497 Clp amino terminal domain; Region: Clp_N; pfam02861 28072014498 Clp amino terminal domain; Region: Clp_N; pfam02861 28072014499 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072014500 Walker A motif; other site 28072014501 ATP binding site [chemical binding]; other site 28072014502 Walker B motif; other site 28072014503 arginine finger; other site 28072014504 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072014505 Walker A motif; other site 28072014506 ATP binding site [chemical binding]; other site 28072014507 Walker B motif; other site 28072014508 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 28072014509 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072014510 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 28072014511 cofactor binding site; other site 28072014512 DNA binding site [nucleotide binding] 28072014513 substrate interaction site [chemical binding]; other site 28072014514 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 28072014515 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 28072014516 hydrophobic ligand binding site; other site 28072014517 Rubredoxin; Region: Rubredoxin; pfam00301 28072014518 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 28072014519 iron binding site [ion binding]; other site 28072014520 flavoprotein, HI0933 family; Region: TIGR00275 28072014521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 28072014522 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072014523 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072014524 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072014525 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 28072014526 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 28072014527 Chain length determinant protein; Region: Wzz; pfam02706 28072014528 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072014529 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072014530 active site 28072014531 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 28072014532 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 28072014533 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 28072014534 FAD binding domain; Region: FAD_binding_4; pfam01565 28072014535 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 28072014536 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072014537 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072014538 active site 28072014539 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 28072014540 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 28072014541 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 28072014542 trimer interface [polypeptide binding]; other site 28072014543 active site 28072014544 UDP-GlcNAc binding site [chemical binding]; other site 28072014545 lipid binding site [chemical binding]; lipid-binding site 28072014546 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 28072014547 Cysteine-rich domain; Region: CCG; pfam02754 28072014548 Cysteine-rich domain; Region: CCG; pfam02754 28072014549 acyl carrier protein; Provisional; Region: acpP; PRK00982 28072014550 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 28072014551 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 28072014552 dimer interface [polypeptide binding]; other site 28072014553 active site 28072014554 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 28072014555 transketolase; Region: PLN02790 28072014556 TPP-binding site [chemical binding]; other site 28072014557 dimer interface [polypeptide binding]; other site 28072014558 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 28072014559 PYR/PP interface [polypeptide binding]; other site 28072014560 dimer interface [polypeptide binding]; other site 28072014561 TPP binding site [chemical binding]; other site 28072014562 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 28072014563 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 28072014564 NADPH bind site [chemical binding]; other site 28072014565 putative FMN binding site [chemical binding]; other site 28072014566 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 28072014567 putative FMN binding site [chemical binding]; other site 28072014568 NADPH bind site [chemical binding]; other site 28072014569 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072014570 GAF domain; Region: GAF; pfam01590 28072014571 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072014572 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014573 putative active site [active] 28072014574 heme pocket [chemical binding]; other site 28072014575 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014576 putative active site [active] 28072014577 heme pocket [chemical binding]; other site 28072014578 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072014579 GAF domain; Region: GAF; pfam01590 28072014580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 28072014581 Histidine kinase; Region: HisKA_2; pfam07568 28072014582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072014583 ATP binding site [chemical binding]; other site 28072014584 Mg2+ binding site [ion binding]; other site 28072014585 G-X-G motif; other site 28072014586 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072014587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072014588 active site 28072014589 phosphorylation site [posttranslational modification] 28072014590 intermolecular recognition site; other site 28072014591 dimerization interface [polypeptide binding]; other site 28072014592 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072014593 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014594 putative active site [active] 28072014595 heme pocket [chemical binding]; other site 28072014596 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072014597 dimer interface [polypeptide binding]; other site 28072014598 phosphorylation site [posttranslational modification] 28072014599 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072014600 ATP binding site [chemical binding]; other site 28072014601 Mg2+ binding site [ion binding]; other site 28072014602 G-X-G motif; other site 28072014603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 28072014604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 28072014605 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 28072014606 putative dimerization interface [polypeptide binding]; other site 28072014607 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072014608 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072014609 Hexamer interface [polypeptide binding]; other site 28072014610 Hexagonal pore residue; other site 28072014611 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072014612 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072014613 Hexamer interface [polypeptide binding]; other site 28072014614 Hexagonal pore residue; other site 28072014615 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 28072014616 putative trimer interface [polypeptide binding]; other site 28072014617 putative CoA binding site [chemical binding]; other site 28072014618 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 28072014619 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 28072014620 trimer interface [polypeptide binding]; other site 28072014621 active site 28072014622 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 28072014623 putative multimerization interface [polypeptide binding]; other site 28072014624 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 28072014625 putative multimerization interface [polypeptide binding]; other site 28072014626 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 28072014627 putative multimerization interface [polypeptide binding]; other site 28072014628 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 28072014629 Hexamer/Pentamer interface [polypeptide binding]; other site 28072014630 central pore; other site 28072014631 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072014632 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072014633 Hexamer interface [polypeptide binding]; other site 28072014634 Hexagonal pore residue; other site 28072014635 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 28072014636 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 28072014637 Hexamer interface [polypeptide binding]; other site 28072014638 Hexagonal pore residue; other site 28072014639 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 28072014640 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 28072014641 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072014642 NAD(P)H-quinone oxidoreductase subunit D4; Validated; Region: PRK06473 28072014643 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072014644 CO2 hydration protein (ChpXY); Region: ChpXY; pfam10216 28072014645 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 28072014646 Putative restriction endonuclease; Region: Uma2; pfam05685 28072014647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072014648 NACHT domain; Region: NACHT; pfam05729 28072014649 Walker A/P-loop; other site 28072014650 ATP binding site [chemical binding]; other site 28072014651 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 28072014652 GUN4-like; Region: GUN4; pfam05419 28072014653 FOG: CBS domain [General function prediction only]; Region: COG0517 28072014654 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_7; cd04620 28072014655 FOG: CBS domain [General function prediction only]; Region: COG0517 28072014656 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 28072014657 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072014658 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072014659 PAS domain S-box; Region: sensory_box; TIGR00229 28072014660 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014661 putative active site [active] 28072014662 heme pocket [chemical binding]; other site 28072014663 PAS domain S-box; Region: sensory_box; TIGR00229 28072014664 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014665 putative active site [active] 28072014666 heme pocket [chemical binding]; other site 28072014667 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014668 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072014669 putative active site [active] 28072014670 heme pocket [chemical binding]; other site 28072014671 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072014672 putative active site [active] 28072014673 heme pocket [chemical binding]; other site 28072014674 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072014675 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072014676 dimer interface [polypeptide binding]; other site 28072014677 phosphorylation site [posttranslational modification] 28072014678 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072014679 ATP binding site [chemical binding]; other site 28072014680 Mg2+ binding site [ion binding]; other site 28072014681 G-X-G motif; other site 28072014682 Response regulator receiver domain; Region: Response_reg; pfam00072 28072014683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072014684 active site 28072014685 phosphorylation site [posttranslational modification] 28072014686 intermolecular recognition site; other site 28072014687 dimerization interface [polypeptide binding]; other site 28072014688 Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only]; Region: Uma2; COG4636 28072014689 Uncharacterized conserved protein [Function unknown]; Region: COG4938 28072014690 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 28072014691 Protein of unknown function DUF262; Region: DUF262; pfam03235 28072014692 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 28072014693 FAD binding site [chemical binding]; other site 28072014694 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 28072014695 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 28072014696 active site 28072014697 HIGH motif; other site 28072014698 dimer interface [polypeptide binding]; other site 28072014699 KMSKS motif; other site 28072014700 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 28072014701 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 28072014702 Cysteine-rich domain; Region: CCG; pfam02754 28072014703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 28072014704 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 28072014705 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 28072014706 Cysteine-rich domain; Region: CCG; pfam02754 28072014707 Cysteine-rich domain; Region: CCG; pfam02754 28072014708 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 28072014709 active site residue [active] 28072014710 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 28072014711 TAP-like protein; Region: Abhydrolase_4; pfam08386 28072014712 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 28072014713 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 28072014714 cofactor binding site; other site 28072014715 DNA binding site [nucleotide binding] 28072014716 substrate interaction site [chemical binding]; other site 28072014717 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 28072014718 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072014719 non-specific DNA binding site [nucleotide binding]; other site 28072014720 salt bridge; other site 28072014721 sequence-specific DNA binding site [nucleotide binding]; other site 28072014722 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 28072014723 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 28072014724 putative homodimer interface [polypeptide binding]; other site 28072014725 putative active site pocket [active] 28072014726 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 28072014727 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 28072014728 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 28072014729 trimer interface [polypeptide binding]; other site 28072014730 active site 28072014731 substrate binding site [chemical binding]; other site 28072014732 CoA binding site [chemical binding]; other site 28072014733 photosystem II reaction center I protein I; Provisional; Region: psbI; PRK02655 28072014734 OstA-like protein; Region: OstA; cl00844 28072014735 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 28072014736 conserved hypothetical protein; Region: TIGR02231 28072014737 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 28072014738 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 28072014739 T5orf172 domain; Region: T5orf172; pfam10544 28072014740 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 28072014741 putative active site [active] 28072014742 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 28072014743 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 28072014744 Walker A/P-loop; other site 28072014745 ATP binding site [chemical binding]; other site 28072014746 Q-loop/lid; other site 28072014747 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 28072014748 ABC transporter signature motif; other site 28072014749 Walker B; other site 28072014750 D-loop; other site 28072014751 H-loop/switch region; other site 28072014752 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 28072014753 ABC1 family; Region: ABC1; pfam03109 28072014754 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 28072014755 active site 28072014756 ATP binding site [chemical binding]; other site 28072014757 valyl-tRNA synthetase; Region: valS; TIGR00422 28072014758 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 28072014759 active site 28072014760 HIGH motif; other site 28072014761 nucleotide binding site [chemical binding]; other site 28072014762 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 28072014763 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 28072014764 active site 28072014765 KMSKS motif; other site 28072014766 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 28072014767 tRNA binding surface [nucleotide binding]; other site 28072014768 anticodon binding site; other site 28072014769 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 28072014770 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 28072014771 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 28072014772 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 28072014773 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 28072014774 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 28072014775 Fasciclin domain; Region: Fasciclin; pfam02469 28072014776 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014777 binding surface 28072014778 TPR motif; other site 28072014779 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 28072014780 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014781 binding surface 28072014782 TPR motif; other site 28072014783 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014784 binding surface 28072014785 TPR motif; other site 28072014786 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014787 binding surface 28072014788 TPR motif; other site 28072014789 CHAT domain; Region: CHAT; cl17868 28072014790 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 28072014791 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072014792 Walker A motif; other site 28072014793 ATP binding site [chemical binding]; other site 28072014794 Walker B motif; other site 28072014795 arginine finger; other site 28072014796 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 28072014797 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 28072014798 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 28072014799 DXD motif; other site 28072014800 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 28072014801 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 28072014802 DRTGG domain; Region: DRTGG; pfam07085 28072014803 Predicted membrane protein [Function unknown]; Region: COG3686 28072014804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 28072014805 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 28072014806 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 28072014807 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 28072014808 putative C-terminal domain interface [polypeptide binding]; other site 28072014809 putative GSH binding site (G-site) [chemical binding]; other site 28072014810 putative dimer interface [polypeptide binding]; other site 28072014811 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 28072014812 N-terminal domain interface [polypeptide binding]; other site 28072014813 dimer interface [polypeptide binding]; other site 28072014814 substrate binding pocket (H-site) [chemical binding]; other site 28072014815 TPR repeat; Region: TPR_11; pfam13414 28072014816 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072014817 binding surface 28072014818 TPR motif; other site 28072014819 TPR repeat; Region: TPR_11; pfam13414 28072014820 Photosystem I protein M (PsaM); Region: PsaM; pfam07465 28072014821 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 28072014822 D-xylulose kinase; Region: XylB; TIGR01312 28072014823 nucleotide binding site [chemical binding]; other site 28072014824 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 28072014825 muropeptide transporter; Reviewed; Region: ampG; PRK11902 28072014826 muropeptide transporter; Validated; Region: ampG; cl17669 28072014827 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 28072014828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 28072014829 ChaB; Region: ChaB; cl01887 28072014830 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 28072014831 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 28072014832 dimerization interface [polypeptide binding]; other site 28072014833 DPS ferroxidase diiron center [ion binding]; other site 28072014834 ion pore; other site 28072014835 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 28072014836 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 28072014837 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 28072014838 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 28072014839 Domain of unknown function DUF20; Region: UPF0118; pfam01594 28072014840 Predicted membrane protein [Function unknown]; Region: COG4330 28072014841 Subunit 21 of Mediator complex; Region: Med21; pfam11221 28072014842 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 28072014843 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072014844 Uncharacterized conserved protein [Function unknown]; Region: COG1801 28072014845 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 28072014846 MltA specific insert domain; Region: MltA; pfam03562 28072014847 3D domain; Region: 3D; pfam06725 28072014848 GTPase RsgA; Reviewed; Region: PRK01889 28072014849 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 28072014850 RNA binding site [nucleotide binding]; other site 28072014851 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 28072014852 GTPase/Zn-binding domain interface [polypeptide binding]; other site 28072014853 GTP/Mg2+ binding site [chemical binding]; other site 28072014854 G4 box; other site 28072014855 G5 box; other site 28072014856 G1 box; other site 28072014857 Switch I region; other site 28072014858 G2 box; other site 28072014859 G3 box; other site 28072014860 Switch II region; other site 28072014861 Uncharacterized conserved protein [Function unknown]; Region: COG3349 28072014862 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072014863 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 28072014864 GTPase Era; Reviewed; Region: era; PRK00089 28072014865 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 28072014866 G1 box; other site 28072014867 GTP/Mg2+ binding site [chemical binding]; other site 28072014868 Switch I region; other site 28072014869 G2 box; other site 28072014870 Switch II region; other site 28072014871 G3 box; other site 28072014872 G4 box; other site 28072014873 G5 box; other site 28072014874 KH domain; Region: KH_2; pfam07650 28072014875 Response regulator receiver domain; Region: Response_reg; pfam00072 28072014876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072014877 active site 28072014878 phosphorylation site [posttranslational modification] 28072014879 intermolecular recognition site; other site 28072014880 dimerization interface [polypeptide binding]; other site 28072014881 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 28072014882 DNA binding residues [nucleotide binding] 28072014883 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072014884 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072014885 S-adenosylmethionine binding site [chemical binding]; other site 28072014886 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 28072014887 IHF dimer interface [polypeptide binding]; other site 28072014888 IHF - DNA interface [nucleotide binding]; other site 28072014889 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 28072014890 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072014891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072014892 homodimer interface [polypeptide binding]; other site 28072014893 catalytic residue [active] 28072014894 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 28072014895 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 28072014896 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072014897 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 28072014898 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 28072014899 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072014900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072014901 active site 28072014902 intermolecular recognition site; other site 28072014903 dimerization interface [polypeptide binding]; other site 28072014904 Protein of unknown function (DUF3685); Region: DUF3685; pfam12452 28072014905 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 28072014906 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 28072014907 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 28072014908 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072014909 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 28072014910 ligand binding site [chemical binding]; other site 28072014911 flexible hinge region; other site 28072014912 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 28072014913 putative switch regulator; other site 28072014914 non-specific DNA interactions [nucleotide binding]; other site 28072014915 DNA binding site [nucleotide binding] 28072014916 sequence specific DNA binding site [nucleotide binding]; other site 28072014917 putative cAMP binding site [chemical binding]; other site 28072014918 enoyl-(acyl carrier protein) reductase; Validated; Region: PRK07370 28072014919 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 28072014920 NAD binding site [chemical binding]; other site 28072014921 homotetramer interface [polypeptide binding]; other site 28072014922 homodimer interface [polypeptide binding]; other site 28072014923 substrate binding site [chemical binding]; other site 28072014924 active site 28072014925 imidazoleglycerol-phosphate dehydratase; Region: PLN02800 28072014926 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 28072014927 putative active site pocket [active] 28072014928 4-fold oligomerization interface [polypeptide binding]; other site 28072014929 metal binding residues [ion binding]; metal-binding site 28072014930 3-fold/trimer interface [polypeptide binding]; other site 28072014931 Protein kinase domain; Region: Pkinase; pfam00069 28072014932 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072014933 active site 28072014934 ATP binding site [chemical binding]; other site 28072014935 substrate binding site [chemical binding]; other site 28072014936 activation loop (A-loop); other site 28072014937 AAA ATPase domain; Region: AAA_16; pfam13191 28072014938 Predicted ATPase [General function prediction only]; Region: COG3899 28072014939 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072014940 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072014941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072014942 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072014943 ATP binding site [chemical binding]; other site 28072014944 Mg2+ binding site [ion binding]; other site 28072014945 G-X-G motif; other site 28072014946 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 28072014947 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 28072014948 Walker A/P-loop; other site 28072014949 ATP binding site [chemical binding]; other site 28072014950 Q-loop/lid; other site 28072014951 ABC transporter signature motif; other site 28072014952 Walker B; other site 28072014953 D-loop; other site 28072014954 H-loop/switch region; other site 28072014955 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 28072014956 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 28072014957 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 28072014958 SLBB domain; Region: SLBB; pfam10531 28072014959 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 28072014960 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 28072014961 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 28072014962 dihydropteroate synthase; Region: DHPS; TIGR01496 28072014963 substrate binding pocket [chemical binding]; other site 28072014964 dimer interface [polypeptide binding]; other site 28072014965 inhibitor binding site; inhibition site 28072014966 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 28072014967 dimer interface [polypeptide binding]; other site 28072014968 substrate binding site [chemical binding]; other site 28072014969 catalytic triad [active] 28072014970 Dynamin family; Region: Dynamin_N; pfam00350 28072014971 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 28072014972 G1 box; other site 28072014973 GTP/Mg2+ binding site [chemical binding]; other site 28072014974 Switch I region; other site 28072014975 G2 box; other site 28072014976 Switch II region; other site 28072014977 G3 box; other site 28072014978 G4 box; other site 28072014979 G5 box; other site 28072014980 Domain of unknown function (DUF697); Region: DUF697; pfam05128 28072014981 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 28072014982 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 28072014983 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 28072014984 hydrophobic ligand binding site; other site 28072014985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072014986 Coenzyme A binding pocket [chemical binding]; other site 28072014987 hypothetical protein; Reviewed; Region: PRK00024 28072014988 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 28072014989 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 28072014990 MPN+ (JAMM) motif; other site 28072014991 Zinc-binding site [ion binding]; other site 28072014992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072014993 Probable transposase; Region: OrfB_IS605; pfam01385 28072014994 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072014995 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 28072014996 G1 box; other site 28072014997 GTP/Mg2+ binding site [chemical binding]; other site 28072014998 G2 box; other site 28072014999 Switch I region; other site 28072015000 G3 box; other site 28072015001 Switch II region; other site 28072015002 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 28072015003 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 28072015004 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 28072015005 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072015006 metal binding site [ion binding]; metal-binding site 28072015007 active site 28072015008 I-site; other site 28072015009 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 28072015010 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548; Region: HAD-SF-IA-hyp1 28072015011 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 28072015012 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 28072015013 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072015014 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 28072015015 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072015016 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072015017 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 28072015018 FtsX-like permease family; Region: FtsX; pfam02687 28072015019 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 28072015020 active site 28072015021 putative substrate binding region [chemical binding]; other site 28072015022 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 28072015023 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 28072015024 homodimer interface [polypeptide binding]; other site 28072015025 active site 28072015026 TDP-binding site; other site 28072015027 acceptor substrate-binding pocket; other site 28072015028 CAAX protease self-immunity; Region: Abi; pfam02517 28072015029 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 28072015030 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 28072015031 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 28072015032 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072015033 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 28072015034 FeS/SAM binding site; other site 28072015035 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 28072015036 hypothetical protein; Provisional; Region: PRK02724 28072015037 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072015038 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072015039 active site 28072015040 ATP binding site [chemical binding]; other site 28072015041 substrate binding site [chemical binding]; other site 28072015042 activation loop (A-loop); other site 28072015043 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072015044 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072015045 structural tetrad; other site 28072015046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 28072015047 SPFH domain / Band 7 family; Region: Band_7; pfam01145 28072015048 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 28072015049 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 28072015050 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 28072015051 gamma subunit interface [polypeptide binding]; other site 28072015052 epsilon subunit interface [polypeptide binding]; other site 28072015053 LBP interface [polypeptide binding]; other site 28072015054 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 28072015055 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 28072015056 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 28072015057 alpha subunit interaction interface [polypeptide binding]; other site 28072015058 Walker A motif; other site 28072015059 ATP binding site [chemical binding]; other site 28072015060 Walker B motif; other site 28072015061 inhibitor binding site; inhibition site 28072015062 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 28072015063 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 28072015064 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 28072015065 putative NAD(P) binding site [chemical binding]; other site 28072015066 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 28072015067 HSP70 interaction site [polypeptide binding]; other site 28072015068 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072015069 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072015070 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072015071 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072015072 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13398 28072015073 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 28072015074 YGGT family; Region: YGGT; pfam02325 28072015075 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 28072015076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 28072015077 active site 28072015078 carotene isomerase; Region: carot_isom; TIGR02730 28072015079 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 28072015080 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 28072015081 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 28072015082 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 28072015083 Surface antigen; Region: Bac_surface_Ag; pfam01103 28072015084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 28072015085 conserved hypothetical protein; Region: TIGR03492 28072015086 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 28072015087 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015088 putative active site [active] 28072015089 heme pocket [chemical binding]; other site 28072015090 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015091 putative active site [active] 28072015092 heme pocket [chemical binding]; other site 28072015093 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015094 putative active site [active] 28072015095 heme pocket [chemical binding]; other site 28072015096 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 28072015097 metal binding site [ion binding]; metal-binding site 28072015098 active site 28072015099 I-site; other site 28072015100 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 28072015101 bifunctional sterol desaturase/short chain dehydrogenase; Validated; Region: PRK07424 28072015102 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 28072015103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015104 NAD(P) binding site [chemical binding]; other site 28072015105 cyanosortase-associated protein; Region: cyanosort_assoc; TIGR04153 28072015106 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 28072015107 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 28072015108 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 28072015109 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 28072015110 putative active site [active] 28072015111 catalytic site [active] 28072015112 putative metal binding site [ion binding]; other site 28072015113 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 28072015114 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 28072015115 Uncharacterized conserved protein [Function unknown]; Region: COG5464 28072015116 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 28072015117 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 28072015118 TPR repeat; Region: TPR_11; pfam13414 28072015119 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072015120 binding surface 28072015121 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 28072015122 XisH protein; Region: XisH; pfam08814 28072015123 XisI protein; Region: XisI; pfam08869 28072015124 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072015125 putative active site [active] 28072015126 Transposase IS200 like; Region: Y1_Tnp; cl00848 28072015127 Protein of unknown function (DUF616); Region: DUF616; pfam04765 28072015128 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 28072015129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 28072015130 Methyltransferase domain; Region: Methyltransf_23; pfam13489 28072015131 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 28072015132 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 28072015133 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 28072015134 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072015135 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072015136 phosphopeptide binding site; other site 28072015137 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072015138 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072015139 active site 28072015140 ATP binding site [chemical binding]; other site 28072015141 substrate binding site [chemical binding]; other site 28072015142 activation loop (A-loop); other site 28072015143 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 28072015144 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 28072015145 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 28072015146 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 28072015147 active site 28072015148 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 28072015149 pseudouridine synthase; Region: TIGR00093 28072015150 probable active site [active] 28072015151 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 28072015152 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 28072015153 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 28072015154 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072015155 putative metal binding site; other site 28072015156 IncA protein; Region: IncA; pfam04156 28072015157 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 28072015158 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 28072015159 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 28072015160 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072015161 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072015162 active site 28072015163 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 28072015164 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 28072015165 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 28072015166 heat shock protein 90; Provisional; Region: PRK05218 28072015167 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015168 ATP binding site [chemical binding]; other site 28072015169 Mg2+ binding site [ion binding]; other site 28072015170 G-X-G motif; other site 28072015171 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 28072015172 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 28072015173 active site 28072015174 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 28072015175 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 28072015176 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072015177 active site 28072015178 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 28072015179 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072015180 active site 28072015181 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072015182 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072015183 active site 28072015184 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 28072015185 Clp amino terminal domain; Region: Clp_N; pfam02861 28072015186 Clp amino terminal domain; Region: Clp_N; pfam02861 28072015187 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072015188 Walker A motif; other site 28072015189 ATP binding site [chemical binding]; other site 28072015190 Walker B motif; other site 28072015191 arginine finger; other site 28072015192 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072015193 Walker A motif; other site 28072015194 ATP binding site [chemical binding]; other site 28072015195 Walker B motif; other site 28072015196 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 28072015197 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 28072015198 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 28072015199 dimer interface [polypeptide binding]; other site 28072015200 active site 28072015201 metal binding site [ion binding]; metal-binding site 28072015202 glutathione binding site [chemical binding]; other site 28072015203 enolase; Provisional; Region: eno; PRK00077 28072015204 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 28072015205 dimer interface [polypeptide binding]; other site 28072015206 metal binding site [ion binding]; metal-binding site 28072015207 substrate binding pocket [chemical binding]; other site 28072015208 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 28072015209 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 28072015210 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional; Region: PRK09319 28072015211 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 28072015212 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 28072015213 dimerization interface [polypeptide binding]; other site 28072015214 active site 28072015215 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072015216 putative active site [active] 28072015217 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 28072015218 amidase catalytic site [active] 28072015219 Zn binding residues [ion binding]; other site 28072015220 substrate binding site [chemical binding]; other site 28072015221 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072015222 GAF domain; Region: GAF; pfam01590 28072015223 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 28072015224 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015225 putative active site [active] 28072015226 heme pocket [chemical binding]; other site 28072015227 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072015228 dimer interface [polypeptide binding]; other site 28072015229 phosphorylation site [posttranslational modification] 28072015230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015231 ATP binding site [chemical binding]; other site 28072015232 Mg2+ binding site [ion binding]; other site 28072015233 G-X-G motif; other site 28072015234 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 28072015235 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 28072015236 cobalamin binding residues [chemical binding]; other site 28072015237 putative BtuC binding residues; other site 28072015238 dimer interface [polypeptide binding]; other site 28072015239 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 28072015240 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 28072015241 active site 28072015242 Zn binding site [ion binding]; other site 28072015243 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 28072015244 Domain of unknown function DUF21; Region: DUF21; pfam01595 28072015245 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 28072015246 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072015247 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072015248 active site 28072015249 ATP binding site [chemical binding]; other site 28072015250 substrate binding site [chemical binding]; other site 28072015251 activation loop (A-loop); other site 28072015252 hydrolase, alpha/beta fold family protein; Region: PLN02824 28072015253 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072015254 S-layer homology domain; Region: SLH; pfam00395 28072015255 S-layer homology domain; Region: SLH; pfam00395 28072015256 S-layer homology domain; Region: SLH; pfam00395 28072015257 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 28072015258 Mechanosensitive ion channel; Region: MS_channel; pfam00924 28072015259 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 28072015260 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 28072015261 putative active site [active] 28072015262 Zn binding site [ion binding]; other site 28072015263 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 28072015264 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 28072015265 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 28072015266 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 28072015267 Peptidase family M23; Region: Peptidase_M23; pfam01551 28072015268 Protein of unknown function (DUF1702); Region: DUF1702; pfam08012 28072015269 Family description; Region: VCBS; pfam13517 28072015270 Family description; Region: VCBS; pfam13517 28072015271 Family description; Region: VCBS; pfam13517 28072015272 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 28072015273 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 28072015274 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 28072015275 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072015276 active site 28072015277 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 28072015278 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 28072015279 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 28072015280 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 28072015281 putative NADP binding site [chemical binding]; other site 28072015282 active site 28072015283 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 28072015284 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 28072015285 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 28072015286 active site 28072015287 exopolyphosphatase; Region: exo_poly_only; TIGR03706 28072015288 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 28072015289 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12870 28072015290 UbiA prenyltransferase family; Region: UbiA; pfam01040 28072015291 putative phosphoketolase; Provisional; Region: PRK05261 28072015292 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 28072015293 TPP-binding site; other site 28072015294 XFP C-terminal domain; Region: XFP_C; pfam09363 28072015295 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 28072015296 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 28072015297 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 28072015298 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 28072015299 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 28072015300 domain interfaces; other site 28072015301 active site 28072015302 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 28072015303 transaldolase-like protein; Provisional; Region: PTZ00411 28072015304 active site 28072015305 dimer interface [polypeptide binding]; other site 28072015306 catalytic residue [active] 28072015307 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 28072015308 propionate/acetate kinase; Provisional; Region: PRK12379 28072015309 serine O-acetyltransferase; Region: cysE; TIGR01172 28072015310 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 28072015311 trimer interface [polypeptide binding]; other site 28072015312 active site 28072015313 substrate binding site [chemical binding]; other site 28072015314 CoA binding site [chemical binding]; other site 28072015315 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 28072015316 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 28072015317 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 28072015318 active site 28072015319 catalytic residues [active] 28072015320 metal binding site [ion binding]; metal-binding site 28072015321 NifZ domain; Region: NifZ; pfam04319 28072015322 NifT/FixU protein; Region: NifT; pfam06988 28072015323 hypothetical protein; Reviewed; Region: PRK12275 28072015324 four helix bundle protein; Region: TIGR02436 28072015325 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 28072015326 dimer interface [polypeptide binding]; other site 28072015327 [2Fe-2S] cluster binding site [ion binding]; other site 28072015328 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 28072015329 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 28072015330 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 28072015331 Substrate binding site [chemical binding]; other site 28072015332 ATP-grasp domain; Region: ATP-grasp_4; cl17255 28072015333 Sulfatase; Region: Sulfatase; cl17466 28072015334 coproporphyrinogen III oxidase; Validated; Region: PRK08208 28072015335 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 28072015336 FeS/SAM binding site; other site 28072015337 HemN C-terminal domain; Region: HemN_C; pfam06969 28072015338 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 28072015339 PemK-like protein; Region: PemK; cl00995 28072015340 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 28072015341 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 28072015342 Predicted transcriptional regulator [Transcription]; Region: COG3905 28072015343 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 28072015344 putative acyl-acceptor binding pocket; other site 28072015345 prolyl-tRNA synthetase; Provisional; Region: PRK09194 28072015346 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 28072015347 dimer interface [polypeptide binding]; other site 28072015348 motif 1; other site 28072015349 active site 28072015350 motif 2; other site 28072015351 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 28072015352 putative deacylase active site [active] 28072015353 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 28072015354 active site 28072015355 motif 3; other site 28072015356 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 28072015357 anticodon binding site; other site 28072015358 Sporulation and spore germination; Region: Germane; pfam10646 28072015359 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 28072015360 putative DNA binding site [nucleotide binding]; other site 28072015361 putative Zn2+ binding site [ion binding]; other site 28072015362 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 28072015363 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 28072015364 carboxyltransferase (CT) interaction site; other site 28072015365 biotinylation site [posttranslational modification]; other site 28072015366 elongation factor P; Validated; Region: PRK00529 28072015367 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 28072015368 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 28072015369 RNA binding site [nucleotide binding]; other site 28072015370 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 28072015371 RNA binding site [nucleotide binding]; other site 28072015372 cyclophilin_TLP40_like: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl...; Region: cyclophilin_TLP40_like; cd01924 28072015373 active site 28072015374 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072015375 putative active site [active] 28072015376 thiamine monophosphate kinase; Provisional; Region: PRK05731 28072015377 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 28072015378 ATP binding site [chemical binding]; other site 28072015379 dimerization interface [polypeptide binding]; other site 28072015380 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK07403 28072015381 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 28072015382 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 28072015383 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 28072015384 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 28072015385 active site 28072015386 (T/H)XGH motif; other site 28072015387 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 28072015388 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 28072015389 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 28072015390 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 28072015391 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 28072015392 FAD binding domain; Region: FAD_binding_4; pfam01565 28072015393 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 28072015394 hypothetical protein; Validated; Region: PRK00153 28072015395 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 28072015396 EamA-like transporter family; Region: EamA; pfam00892 28072015397 EamA-like transporter family; Region: EamA; pfam00892 28072015398 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072015399 HEAT repeats; Region: HEAT_2; pfam13646 28072015400 non-SMC mitotic condensation complex subunit 1; Region: Cnd1; pfam12717 28072015401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4704 28072015402 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 28072015403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072015404 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072015405 dimer interface [polypeptide binding]; other site 28072015406 phosphorylation site [posttranslational modification] 28072015407 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015408 ATP binding site [chemical binding]; other site 28072015409 Mg2+ binding site [ion binding]; other site 28072015410 G-X-G motif; other site 28072015411 CHAT domain; Region: CHAT; pfam12770 28072015412 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 28072015413 active site 28072015414 catalytic triad [active] 28072015415 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 28072015416 dimer interface [polypeptide binding]; other site 28072015417 substrate binding site [chemical binding]; other site 28072015418 ATP binding site [chemical binding]; other site 28072015419 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 28072015420 Nitrogen regulatory protein P-II; Region: P-II; smart00938 28072015421 S-formylglutathione hydrolase; Region: PLN02442 28072015422 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 28072015423 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 28072015424 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 28072015425 substrate binding site [chemical binding]; other site 28072015426 catalytic Zn binding site [ion binding]; other site 28072015427 NAD binding site [chemical binding]; other site 28072015428 structural Zn binding site [ion binding]; other site 28072015429 dimer interface [polypeptide binding]; other site 28072015430 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 28072015431 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072015432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072015433 homodimer interface [polypeptide binding]; other site 28072015434 catalytic residue [active] 28072015435 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 28072015436 RimM N-terminal domain; Region: RimM; pfam01782 28072015437 PRC-barrel domain; Region: PRC; pfam05239 28072015438 putative addiction module antidote; Region: doc_partner; TIGR02609 28072015439 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 28072015440 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 28072015441 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 28072015442 core domain interface [polypeptide binding]; other site 28072015443 delta subunit interface [polypeptide binding]; other site 28072015444 epsilon subunit interface [polypeptide binding]; other site 28072015445 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 28072015446 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 28072015447 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 28072015448 beta subunit interaction interface [polypeptide binding]; other site 28072015449 Walker A motif; other site 28072015450 ATP binding site [chemical binding]; other site 28072015451 Walker B motif; other site 28072015452 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 28072015453 ATP synthase, F1 delta subunit; Region: ATP_synt_delta; TIGR01145 28072015454 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 28072015455 F0F1 ATP synthase subunit B; Validated; Region: PRK07352 28072015456 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 28072015457 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 28072015458 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 28072015459 ATP synthase CF0 C subunit; Region: atpH; CHL00061 28072015460 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 28072015461 ATP synthase CF0 A subunit; Region: atpI; CHL00046 28072015462 ATP synthase I chain; Region: ATP_synt_I; pfam03899 28072015463 Methyltransferase domain; Region: Methyltransf_31; pfam13847 28072015464 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 28072015465 S-adenosylmethionine binding site [chemical binding]; other site 28072015466 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 28072015467 Transposase; Region: HTH_Tnp_IS630; pfam01710 28072015468 Homeodomain-like domain; Region: HTH_32; pfam13565 28072015469 DDE superfamily endonuclease; Region: DDE_3; pfam13358 28072015470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 28072015471 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 28072015472 metal ion-dependent adhesion site (MIDAS); other site 28072015473 Protein phosphatase 2C; Region: PP2C_2; pfam13672 28072015474 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 28072015475 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 28072015476 substrate binding site [chemical binding]; other site 28072015477 activation loop (A-loop); other site 28072015478 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072015479 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072015480 structural tetrad; other site 28072015481 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 28072015482 protein binding site [polypeptide binding]; other site 28072015483 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 28072015484 phycobillisome linker protein; Region: apcE; CHL00091 28072015485 Phycobilisome protein; Region: Phycobilisome; cl08227 28072015486 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072015487 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072015488 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072015489 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 28072015490 Phycobilisome protein; Region: Phycobilisome; cl08227 28072015491 Phycobilisome protein; Region: Phycobilisome; cl08227 28072015492 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 28072015493 Heme NO binding; Region: HNOB; pfam07700 28072015494 Heme NO binding associated; Region: HNOBA; pfam07701 28072015495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072015496 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072015497 dimer interface [polypeptide binding]; other site 28072015498 phosphorylation site [posttranslational modification] 28072015499 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015500 ATP binding site [chemical binding]; other site 28072015501 Mg2+ binding site [ion binding]; other site 28072015502 G-X-G motif; other site 28072015503 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072015504 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 28072015505 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072015506 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 28072015507 Tic20-like protein; Region: Tic20; pfam09685 28072015508 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 28072015509 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 28072015510 phosphopeptide binding site; other site 28072015511 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 28072015512 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 28072015513 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 28072015514 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 28072015515 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 28072015516 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 28072015517 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072015518 dimer interface [polypeptide binding]; other site 28072015519 conserved gate region; other site 28072015520 putative PBP binding loops; other site 28072015521 ABC-ATPase subunit interface; other site 28072015522 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072015523 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 28072015524 putative ADP-binding pocket [chemical binding]; other site 28072015525 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 28072015526 RNA/DNA hybrid binding site [nucleotide binding]; other site 28072015527 active site 28072015528 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 28072015529 active site 28072015530 Predicted membrane protein [Function unknown]; Region: COG2324 28072015531 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 28072015532 ribosomal protein L21; Region: rpl21; CHL00075 28072015533 Predicted nucleotidyltransferase [General function prediction only]; Region: COG3541 28072015534 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 28072015535 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 28072015536 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072015537 Walker A motif; other site 28072015538 ATP binding site [chemical binding]; other site 28072015539 photosystem II 47 kDa protein; Region: psbB; CHL00062 28072015540 photosystem II reaction center protein T; Reviewed; Region: psbT; PRK11875 28072015541 30S ribosomal protein S1; Reviewed; Region: PRK07400 28072015542 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 28072015543 RNA binding site [nucleotide binding]; other site 28072015544 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 28072015545 RNA binding site [nucleotide binding]; other site 28072015546 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 28072015547 RNA binding site [nucleotide binding]; other site 28072015548 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 28072015549 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 28072015550 motif II; other site 28072015551 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 28072015552 putative active site [active] 28072015553 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 28072015554 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 28072015555 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072015556 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 28072015557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072015558 active site 28072015559 phosphorylation site [posttranslational modification] 28072015560 intermolecular recognition site; other site 28072015561 dimerization interface [polypeptide binding]; other site 28072015562 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 28072015563 DNA binding site [nucleotide binding] 28072015564 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 28072015565 geranylgeranyl reductase; Region: ChlP; TIGR02028 28072015566 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 28072015567 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 28072015568 Walker A/P-loop; other site 28072015569 ATP binding site [chemical binding]; other site 28072015570 Q-loop/lid; other site 28072015571 ABC transporter signature motif; other site 28072015572 Walker B; other site 28072015573 D-loop; other site 28072015574 H-loop/switch region; other site 28072015575 TOBE-like domain; Region: TOBE_3; pfam12857 28072015576 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 28072015577 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 28072015578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015579 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 28072015580 NAD(P) binding site [chemical binding]; other site 28072015581 active site 28072015582 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 28072015583 Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3320 28072015584 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 28072015585 putative NAD(P) binding site [chemical binding]; other site 28072015586 active site 28072015587 putative substrate binding site [chemical binding]; other site 28072015588 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 28072015589 FMN binding site [chemical binding]; other site 28072015590 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 28072015591 substrate binding site [chemical binding]; other site 28072015592 putative catalytic residue [active] 28072015593 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072015594 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 28072015595 active site 28072015596 Acyl transferase domain; Region: Acyl_transf_1; cl08282 28072015597 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 28072015598 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072015599 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 28072015600 active site 28072015601 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 28072015602 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 28072015603 putative NADP binding site [chemical binding]; other site 28072015604 active site 28072015605 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 28072015606 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 28072015607 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 28072015608 active site 28072015609 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 28072015610 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 28072015611 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 28072015612 Phosphopantetheine attachment site; Region: PP-binding; cl09936 28072015613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015614 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 28072015615 ParB-like nuclease domain; Region: ParB; smart00470 28072015616 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 28072015617 DNA methylase; Region: N6_N4_Mtase; cl17433 28072015618 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 28072015619 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 28072015620 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072015621 DevC protein; Region: devC; TIGR01185 28072015622 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 28072015623 FtsX-like permease family; Region: FtsX; pfam02687 28072015624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 28072015625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015626 NAD(P) binding site [chemical binding]; other site 28072015627 active site 28072015628 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 28072015629 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 28072015630 active site 28072015631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4704 28072015632 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 28072015633 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072015634 active site 28072015635 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 28072015636 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 28072015637 active site 28072015638 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 28072015639 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 28072015640 heat shock protein HtpX; Provisional; Region: PRK03982 28072015641 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 28072015642 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 28072015643 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 28072015644 Ligand Binding Site [chemical binding]; other site 28072015645 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 28072015646 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 28072015647 dimer interface [polypeptide binding]; other site 28072015648 anticodon binding site; other site 28072015649 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 28072015650 homodimer interface [polypeptide binding]; other site 28072015651 motif 1; other site 28072015652 active site 28072015653 motif 2; other site 28072015654 GAD domain; Region: GAD; pfam02938 28072015655 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 28072015656 motif 3; other site 28072015657 S-layer homology domain; Region: SLH; pfam00395 28072015658 S-layer homology domain; Region: SLH; pfam00395 28072015659 PRC-barrel domain; Region: PRC; pfam05239 28072015660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3861 28072015661 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 28072015662 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 28072015663 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 28072015664 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 28072015665 glycogen branching enzyme; Provisional; Region: PRK05402 28072015666 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 28072015667 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 28072015668 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 28072015669 active site 28072015670 catalytic site [active] 28072015671 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 28072015672 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 28072015673 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 28072015674 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 28072015675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 28072015676 Probable transposase; Region: OrfB_IS605; pfam01385 28072015677 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 28072015678 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 28072015679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015680 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 28072015681 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 28072015682 NADH(P)-binding; Region: NAD_binding_10; pfam13460 28072015683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015684 active site 28072015685 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 28072015686 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 28072015687 plastocyanin; Provisional; Region: PRK02710 28072015688 cytochrome c-550; Provisional; Region: psbV; PRK13618 28072015689 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 28072015690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072015691 dimer interface [polypeptide binding]; other site 28072015692 conserved gate region; other site 28072015693 putative PBP binding loops; other site 28072015694 ABC-ATPase subunit interface; other site 28072015695 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 28072015696 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 28072015697 putative ligand binding site [chemical binding]; other site 28072015698 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 28072015699 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072015700 N-terminal plug; other site 28072015701 ligand-binding site [chemical binding]; other site 28072015702 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 28072015703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 28072015704 dimer interface [polypeptide binding]; other site 28072015705 conserved gate region; other site 28072015706 putative PBP binding loops; other site 28072015707 ABC-ATPase subunit interface; other site 28072015708 short chain dehydrogenase; Provisional; Region: PRK07109 28072015709 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 28072015710 putative NAD(P) binding site [chemical binding]; other site 28072015711 active site 28072015712 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 28072015713 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 28072015714 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 28072015715 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 28072015716 ligand binding site [chemical binding]; other site 28072015717 flexible hinge region; other site 28072015718 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 28072015719 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 28072015720 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 28072015721 4Fe-4S binding domain; Region: Fer4_5; pfam12801 28072015722 4Fe-4S binding domain; Region: Fer4_5; pfam12801 28072015723 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 28072015724 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 28072015725 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 28072015726 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 28072015727 putative efflux protein, MATE family; Region: matE; TIGR00797 28072015728 Rubrerythrin [Energy production and conversion]; Region: COG1592 28072015729 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 28072015730 binuclear metal center [ion binding]; other site 28072015731 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 28072015732 iron binding site [ion binding]; other site 28072015733 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 28072015734 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 28072015735 FMN binding site [chemical binding]; other site 28072015736 active site 28072015737 substrate binding site [chemical binding]; other site 28072015738 catalytic residue [active] 28072015739 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 28072015740 Protein export membrane protein; Region: SecD_SecF; cl14618 28072015741 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 28072015742 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 28072015743 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072015744 Pirin-related protein [General function prediction only]; Region: COG1741 28072015745 Pirin; Region: Pirin; pfam02678 28072015746 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 28072015747 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 28072015748 dimerization interface [polypeptide binding]; other site 28072015749 DPS ferroxidase diiron center [ion binding]; other site 28072015750 ion pore; other site 28072015751 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 28072015752 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 28072015753 active site 28072015754 catalytic tetrad [active] 28072015755 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 28072015756 Uncharacterized conserved protein [Function unknown]; Region: COG3339 28072015757 photosystem II protein PsbQ; Region: PS_II_psbQ_bact; TIGR03042 28072015758 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 28072015759 hydroxyglutarate oxidase; Provisional; Region: PRK11728 28072015760 haloalkane dehalogenase; Provisional; Region: PRK03592 28072015761 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 28072015762 Haemolytic domain; Region: Haemolytic; pfam01809 28072015763 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 28072015764 Methyltransferase domain; Region: Methyltransf_12; pfam08242 28072015765 HlyD family secretion protein; Region: HlyD_3; pfam13437 28072015766 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 28072015767 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 28072015768 putative active site [active] 28072015769 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072015770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072015771 Walker A/P-loop; other site 28072015772 ATP binding site [chemical binding]; other site 28072015773 Q-loop/lid; other site 28072015774 ABC transporter signature motif; other site 28072015775 Walker B; other site 28072015776 D-loop; other site 28072015777 H-loop/switch region; other site 28072015778 hydrolase, alpha/beta fold family protein; Region: PLN02824 28072015779 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 28072015780 putative catalytic residue [active] 28072015781 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 28072015782 putative nucleotide binding site [chemical binding]; other site 28072015783 uridine monophosphate binding site [chemical binding]; other site 28072015784 homohexameric interface [polypeptide binding]; other site 28072015785 ribosome recycling factor; Reviewed; Region: frr; PRK00083 28072015786 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 28072015787 hinge region; other site 28072015788 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 28072015789 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 28072015790 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 28072015791 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 28072015792 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 28072015793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 28072015794 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072015795 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072015796 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072015797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072015798 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 28072015799 dimer interface [polypeptide binding]; other site 28072015800 phosphorylation site [posttranslational modification] 28072015801 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015802 ATP binding site [chemical binding]; other site 28072015803 Mg2+ binding site [ion binding]; other site 28072015804 G-X-G motif; other site 28072015805 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG3372 28072015806 Protein of unknown function (DUF790); Region: DUF790; pfam05626 28072015807 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 28072015808 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 28072015809 ATP binding site [chemical binding]; other site 28072015810 putative Mg++ binding site [ion binding]; other site 28072015811 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 28072015812 nucleotide binding region [chemical binding]; other site 28072015813 ATP-binding site [chemical binding]; other site 28072015814 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 28072015815 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072015816 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015817 putative active site [active] 28072015818 heme pocket [chemical binding]; other site 28072015819 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015820 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072015821 putative active site [active] 28072015822 heme pocket [chemical binding]; other site 28072015823 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015824 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 28072015825 putative active site [active] 28072015826 heme pocket [chemical binding]; other site 28072015827 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 28072015828 putative active site [active] 28072015829 heme pocket [chemical binding]; other site 28072015830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072015831 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072015832 dimer interface [polypeptide binding]; other site 28072015833 phosphorylation site [posttranslational modification] 28072015834 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015835 ATP binding site [chemical binding]; other site 28072015836 Mg2+ binding site [ion binding]; other site 28072015837 G-X-G motif; other site 28072015838 glutathione reductase; Validated; Region: PRK06116 28072015839 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 28072015840 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 28072015841 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 28072015842 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 28072015843 histidinol-phosphate aminotransferase; Provisional; Region: PRK02610 28072015844 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 28072015845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072015846 homodimer interface [polypeptide binding]; other site 28072015847 catalytic residue [active] 28072015848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 28072015849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 28072015850 Coenzyme A binding pocket [chemical binding]; other site 28072015851 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 28072015852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072015853 active site 28072015854 phosphorylation site [posttranslational modification] 28072015855 intermolecular recognition site; other site 28072015856 dimerization interface [polypeptide binding]; other site 28072015857 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072015858 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072015859 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 28072015860 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 28072015861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 28072015862 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 28072015863 dimer interface [polypeptide binding]; other site 28072015864 phosphorylation site [posttranslational modification] 28072015865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 28072015866 ATP binding site [chemical binding]; other site 28072015867 Mg2+ binding site [ion binding]; other site 28072015868 G-X-G motif; other site 28072015869 Response regulator receiver domain; Region: Response_reg; pfam00072 28072015870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 28072015871 active site 28072015872 phosphorylation site [posttranslational modification] 28072015873 intermolecular recognition site; other site 28072015874 dimerization interface [polypeptide binding]; other site 28072015875 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 28072015876 cyclase homology domain; Region: CHD; cd07302 28072015877 nucleotidyl binding site; other site 28072015878 metal binding site [ion binding]; metal-binding site 28072015879 dimer interface [polypeptide binding]; other site 28072015880 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 28072015881 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 28072015882 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 28072015883 Ca2+ binding site [ion binding]; other site 28072015884 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072015885 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072015886 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072015887 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 28072015888 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072015889 RHS Repeat; Region: RHS_repeat; pfam05593 28072015890 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 28072015891 RHS Repeat; Region: RHS_repeat; pfam05593 28072015892 RHS Repeat; Region: RHS_repeat; pfam05593 28072015893 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072015894 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072015895 RHS Repeat; Region: RHS_repeat; pfam05593 28072015896 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072015897 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072015898 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 28072015899 RHS Repeat; Region: RHS_repeat; pfam05593 28072015900 RHS Repeat; Region: RHS_repeat; pfam05593 28072015901 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 28072015902 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 28072015903 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 28072015904 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072015905 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 28072015906 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 28072015907 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 28072015908 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 28072015909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072015910 Q-loop/lid; other site 28072015911 ABC transporter signature motif; other site 28072015912 Walker B; other site 28072015913 D-loop; other site 28072015914 H-loop/switch region; other site 28072015915 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 28072015916 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 28072015917 Domain of unknown function (DUF1824); Region: DUF1824; pfam08854 28072015918 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 28072015919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 28072015920 Walker A/P-loop; other site 28072015921 ATP binding site [chemical binding]; other site 28072015922 Q-loop/lid; other site 28072015923 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 28072015924 ABC transporter signature motif; other site 28072015925 Walker B; other site 28072015926 D-loop; other site 28072015927 ABC transporter; Region: ABC_tran_2; pfam12848 28072015928 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 28072015929 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 28072015930 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 28072015931 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 28072015932 ATP-grasp domain; Region: ATP-grasp; pfam02222 28072015933 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 28072015934 toxin interface [polypeptide binding]; other site 28072015935 Zn binding site [ion binding]; other site 28072015936 PemK-like protein; Region: PemK; pfam02452 28072015937 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 28072015938 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072015939 active site 28072015940 ATP binding site [chemical binding]; other site 28072015941 substrate binding site [chemical binding]; other site 28072015942 activation loop (A-loop); other site 28072015943 FOG: WD40 repeat [General function prediction only]; Region: COG2319 28072015944 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072015945 structural tetrad; other site 28072015946 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 28072015947 structural tetrad; other site 28072015948 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 28072015949 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 28072015950 Catalytic domain of Protein Kinases; Region: PKc; cd00180 28072015951 active site 28072015952 ATP binding site [chemical binding]; other site 28072015953 substrate binding site [chemical binding]; other site 28072015954 activation loop (A-loop); other site 28072015955 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 28072015956 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 28072015957 DNA binding residues [nucleotide binding] 28072015958 dimer interface [polypeptide binding]; other site 28072015959 metal binding site [ion binding]; metal-binding site 28072015960 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 28072015961 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 28072015962 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 28072015963 metal-binding site [ion binding] 28072015964 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072015965 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072015966 Predicted membrane protein [Function unknown]; Region: COG1981 28072015967 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 28072015968 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 28072015969 active site 28072015970 metal binding site [ion binding]; metal-binding site 28072015971 hexamer interface [polypeptide binding]; other site 28072015972 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 28072015973 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 28072015974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 28072015975 NAD(P) binding site [chemical binding]; other site 28072015976 active site 28072015977 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 28072015978 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 28072015979 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 28072015980 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 28072015981 homodimer interface [polypeptide binding]; other site 28072015982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 28072015983 catalytic residue [active] 28072015984 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 28072015985 Protein of unknown function DUF262; Region: DUF262; pfam03235 28072015986 GTP-binding protein YchF; Reviewed; Region: PRK09601 28072015987 YchF GTPase; Region: YchF; cd01900 28072015988 G1 box; other site 28072015989 GTP/Mg2+ binding site [chemical binding]; other site 28072015990 Switch I region; other site 28072015991 G2 box; other site 28072015992 Switch II region; other site 28072015993 G3 box; other site 28072015994 G4 box; other site 28072015995 G5 box; other site 28072015996 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 28072015997 Predicted membrane protein [Function unknown]; Region: COG2149 28072015998 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 28072015999 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 28072016000 active site 28072016001 homodimer interface [polypeptide binding]; other site 28072016002 SnoaL-like domain; Region: SnoaL_2; pfam12680 28072016003 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 28072016004 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 28072016005 putative NAD(P) binding site [chemical binding]; other site 28072016006 homodimer interface [polypeptide binding]; other site 28072016007 homotetramer interface [polypeptide binding]; other site 28072016008 active site 28072016009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 28072016010 Protein of unknown function (DUF433); Region: DUF433; pfam04255 28072016011 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05945 28072016012 L-aspartate oxidase; Provisional; Region: PRK06175 28072016013 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 28072016014 photosystem I P700 chlorophyll a apoprotein A2; Provisional; Region: psaB; PRK13199 28072016015 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 28072016016 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 28072016017 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 28072016018 S-layer homology domain; Region: SLH; pfam00395 28072016019 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 28072016020 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 28072016021 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 28072016022 AMIN domain; Region: AMIN; pfam11741 28072016023 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 28072016024 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 28072016025 N-terminal plug; other site 28072016026 ligand-binding site [chemical binding]; other site 28072016027 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 28072016028 methanogenesis imperfect marker protein 11; Region: methan_mark_11; TIGR03280 28072016029 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 28072016030 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 28072016031 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 28072016032 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 28072016033 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 28072016034 sequence-specific DNA binding site [nucleotide binding]; other site 28072016035 salt bridge; other site 28072016036 PBP superfamily domain; Region: PBP_like; pfam12727 28072016037 nitrogenase reductase; Reviewed; Region: PRK13236 28072016038 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 28072016039 Nucleotide-binding sites [chemical binding]; other site 28072016040 Walker A motif; other site 28072016041 Switch I region of nucleotide binding site; other site 28072016042 Fe4S4 binding sites [ion binding]; other site 28072016043 Switch II region of nucleotide binding site; other site 28072016044 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 28072016045 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 28072016046 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 28072016047 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072016048 NB-ARC domain; Region: NB-ARC; pfam00931 28072016049 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 28072016050 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072016051 binding surface 28072016052 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072016053 binding surface 28072016054 TPR motif; other site 28072016055 TPR repeat; Region: TPR_11; pfam13414 28072016056 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072016057 TPR motif; other site 28072016058 binding surface 28072016059 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072016060 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 28072016061 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 28072016062 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 28072016063 substrate binding pocket [chemical binding]; other site 28072016064 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 28072016065 B12 binding site [chemical binding]; other site 28072016066 cobalt ligand [ion binding]; other site 28072016067 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 28072016068 CHAT domain; Region: CHAT; cl17868 28072016069 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072016070 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072016071 TPR motif; other site 28072016072 binding surface 28072016073 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072016074 Tetratricopeptide repeat; Region: TPR_12; pfam13424 28072016075 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 28072016076 binding surface 28072016077 TPR motif; other site 28072016078 TPR repeat; Region: TPR_11; pfam13414 28072016079 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 28072016080 Domain of unknown function (DUF4278); Region: DUF4278; pfam14105 28072016081 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 28072016082 sucrose synthase; Region: sucr_synth; TIGR02470 28072016083 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 28072016084 putative ADP-binding pocket [chemical binding]; other site 28072016085 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 28072016086 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 28072016087 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 28072016088 active site 28072016089 metal binding site [ion binding]; metal-binding site 28072016090 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 28072016091 DNA primase; Validated; Region: dnaG; PRK05667 28072016092 CHC2 zinc finger; Region: zf-CHC2; pfam01807 28072016093 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 28072016094 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 28072016095 active site 28072016096 metal binding site [ion binding]; metal-binding site 28072016097 interdomain interaction site; other site 28072016098 recombinase A; Provisional; Region: recA; PRK09354 28072016099 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 28072016100 hexamer interface [polypeptide binding]; other site 28072016101 Walker A motif; other site 28072016102 ATP binding site [chemical binding]; other site 28072016103 Walker B motif; other site 28072016104 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 28072016105 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 28072016106 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 28072016107 nitrilase; Region: PLN02798 28072016108 putative active site [active] 28072016109 catalytic triad [active] 28072016110 dimer interface [polypeptide binding]; other site 28072016111 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 28072016112 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 28072016113 Soluble P-type ATPase [General function prediction only]; Region: COG4087 28072016114 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 28072016115 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 28072016116 active site 28072016117 catalytic residues [active] 28072016118 metal binding site [ion binding]; metal-binding site 28072016119 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 28072016120 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 28072016121 protein binding site [polypeptide binding]; other site 28072016122 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 28072016123 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 28072016124 Walker A motif; other site 28072016125 ATP binding site [chemical binding]; other site 28072016126 Walker B motif; other site 28072016127 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 28072016128 active site 28072016129 catalytic residues [active] 28072016130 DNA binding site [nucleotide binding] 28072016131 Int/Topo IB signature motif; other site