-- dump date 20140619_102427 -- class Genbank::misc_feature -- table misc_feature_note -- id note 663917000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 663917000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 663917000003 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 663917000004 Walker A motif; other site 663917000005 ATP binding site [chemical binding]; other site 663917000006 Walker B motif; other site 663917000007 arginine finger; other site 663917000008 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 663917000009 DnaA box-binding interface [nucleotide binding]; other site 663917000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 663917000011 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 663917000012 putative DNA binding surface [nucleotide binding]; other site 663917000013 dimer interface [polypeptide binding]; other site 663917000014 beta-clamp/clamp loader binding surface; other site 663917000015 beta-clamp/translesion DNA polymerase binding surface; other site 663917000016 recombination protein F; Reviewed; Region: recF; PRK00064 663917000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000018 Walker A/P-loop; other site 663917000019 ATP binding site [chemical binding]; other site 663917000020 Q-loop/lid; other site 663917000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000022 ABC transporter signature motif; other site 663917000023 Walker B; other site 663917000024 D-loop; other site 663917000025 H-loop/switch region; other site 663917000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 663917000027 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 663917000028 Mg2+ binding site [ion binding]; other site 663917000029 G-X-G motif; other site 663917000030 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 663917000031 anchoring element; other site 663917000032 dimer interface [polypeptide binding]; other site 663917000033 ATP binding site [chemical binding]; other site 663917000034 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 663917000035 active site 663917000036 putative metal-binding site [ion binding]; other site 663917000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 663917000038 palindrome; KN400_R0106 663917000039 DNA gyrase subunit A; Validated; Region: PRK05560 663917000040 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 663917000041 CAP-like domain; other site 663917000042 active site 663917000043 primary dimer interface [polypeptide binding]; other site 663917000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 663917000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 663917000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 663917000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 663917000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 663917000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 663917000050 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 663917000051 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 663917000052 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 663917000053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 663917000054 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 663917000055 dimerization interface [polypeptide binding]; other site 663917000056 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 663917000057 putative active site [active] 663917000058 heme pocket [chemical binding]; other site 663917000059 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 663917000060 dimer interface [polypeptide binding]; other site 663917000061 phosphorylation site [posttranslational modification] 663917000062 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 663917000063 ATP binding site [chemical binding]; other site 663917000064 Mg2+ binding site [ion binding]; other site 663917000065 G-X-G motif; other site 663917000066 Response regulator receiver domain; Region: Response_reg; pfam00072 663917000067 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 663917000068 active site 663917000069 phosphorylation site [posttranslational modification] 663917000070 intermolecular recognition site; other site 663917000071 dimerization interface [polypeptide binding]; other site 663917000072 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917000073 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 663917000074 putative active site [active] 663917000075 heme pocket [chemical binding]; other site 663917000076 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 663917000077 dimer interface [polypeptide binding]; other site 663917000078 phosphorylation site [posttranslational modification] 663917000079 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 663917000080 ATP binding site [chemical binding]; other site 663917000081 Mg2+ binding site [ion binding]; other site 663917000082 G-X-G motif; other site 663917000083 PAS domain S-box; Region: sensory_box; TIGR00229 663917000084 PAS domain; Region: PAS; smart00091 663917000085 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 663917000086 dimer interface [polypeptide binding]; other site 663917000087 phosphorylation site [posttranslational modification] 663917000088 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 663917000089 ATP binding site [chemical binding]; other site 663917000090 Mg2+ binding site [ion binding]; other site 663917000091 G-X-G motif; other site 663917000092 Response regulator receiver domain; Region: Response_reg; pfam00072 663917000093 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 663917000094 active site 663917000095 phosphorylation site [posttranslational modification] 663917000096 intermolecular recognition site; other site 663917000097 dimerization interface [polypeptide binding]; other site 663917000098 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 663917000099 PAS domain; Region: PAS_9; pfam13426 663917000100 putative active site [active] 663917000101 heme pocket [chemical binding]; other site 663917000102 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917000103 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917000104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917000105 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 663917000106 dimer interface [polypeptide binding]; other site 663917000107 phosphorylation site [posttranslational modification] 663917000108 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 663917000109 ATP binding site [chemical binding]; other site 663917000110 Mg2+ binding site [ion binding]; other site 663917000111 G-X-G motif; other site 663917000112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000113 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 663917000114 Walker A/P-loop; other site 663917000115 ATP binding site [chemical binding]; other site 663917000116 Q-loop/lid; other site 663917000117 ABC transporter signature motif; other site 663917000118 Walker B; other site 663917000119 D-loop; other site 663917000120 H-loop/switch region; other site 663917000121 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 663917000122 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 663917000123 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 663917000124 MarR family; Region: MarR_2; pfam12802 663917000125 chaperone protein DnaJ; Provisional; Region: PRK14299 663917000126 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 663917000127 HSP70 interaction site [polypeptide binding]; other site 663917000128 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 663917000129 substrate binding site [polypeptide binding]; other site 663917000130 dimer interface [polypeptide binding]; other site 663917000131 SurA N-terminal domain; Region: SurA_N; pfam09312 663917000132 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 663917000133 SurA N-terminal domain; Region: SurA_N_3; cl07813 663917000134 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 663917000135 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 663917000136 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 663917000137 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 663917000138 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 663917000139 ATP binding site [chemical binding]; other site 663917000140 putative Mg++ binding site [ion binding]; other site 663917000141 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 663917000142 nucleotide binding region [chemical binding]; other site 663917000143 ATP-binding site [chemical binding]; other site 663917000144 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 663917000145 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 663917000146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 663917000147 DNA-binding site [nucleotide binding]; DNA binding site 663917000148 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 663917000149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917000150 homodimer interface [polypeptide binding]; other site 663917000151 catalytic residue [active] 663917000152 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 663917000153 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 663917000154 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 663917000155 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 663917000156 trimer interface [polypeptide binding]; other site 663917000157 putative metal binding site [ion binding]; other site 663917000158 Quinolinate synthetase A protein; Region: NadA; pfam02445 663917000159 twin arginine translocase protein A; Provisional; Region: tatA; PRK14858 663917000160 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 663917000161 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 663917000162 binding surface 663917000163 TPR motif; other site 663917000164 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 663917000165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917000166 ligand binding site [chemical binding]; other site 663917000167 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 663917000168 TolB amino-terminal domain; Region: TolB_N; pfam04052 663917000169 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 663917000170 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 663917000171 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 663917000172 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 663917000173 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 663917000174 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 663917000175 TonB C terminal; Region: TonB_2; pfam13103 663917000176 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 663917000177 TolR protein; Region: tolR; TIGR02801 663917000178 TolQ protein; Region: tolQ; TIGR02796 663917000179 Predicted amidohydrolase [General function prediction only]; Region: COG0388 663917000180 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 663917000181 putative active site [active] 663917000182 catalytic triad [active] 663917000183 putative dimer interface [polypeptide binding]; other site 663917000184 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 663917000185 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 663917000186 FeS/SAM binding site; other site 663917000187 HemN C-terminal domain; Region: HemN_C; pfam06969 663917000188 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 663917000189 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 663917000190 GrpE; Region: GrpE; pfam01025 663917000191 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 663917000192 dimer interface [polypeptide binding]; other site 663917000193 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 663917000194 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 663917000195 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 663917000196 nucleotide binding site [chemical binding]; other site 663917000197 NEF interaction site [polypeptide binding]; other site 663917000198 SBD interface [polypeptide binding]; other site 663917000199 chaperone protein DnaJ; Provisional; Region: PRK10767 663917000200 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 663917000201 HSP70 interaction site [polypeptide binding]; other site 663917000202 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 663917000203 substrate binding site [polypeptide binding]; other site 663917000204 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 663917000205 Zn binding sites [ion binding]; other site 663917000206 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 663917000207 dimer interface [polypeptide binding]; other site 663917000208 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 663917000209 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 663917000210 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 663917000211 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 663917000212 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 663917000213 putative active site [active] 663917000214 putative metal binding site [ion binding]; other site 663917000215 seryl-tRNA synthetase; Provisional; Region: PRK05431 663917000216 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 663917000217 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 663917000218 dimer interface [polypeptide binding]; other site 663917000219 active site 663917000220 motif 1; other site 663917000221 motif 2; other site 663917000222 motif 3; other site 663917000223 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 663917000224 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 663917000225 nucleoside/Zn binding site; other site 663917000226 dimer interface [polypeptide binding]; other site 663917000227 catalytic motif [active] 663917000228 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 663917000229 putative catalytic residues [active] 663917000230 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_cladeA; cd00883 663917000231 active site clefts [active] 663917000232 zinc binding site [ion binding]; other site 663917000233 dimer interface [polypeptide binding]; other site 663917000234 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917000235 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 663917000236 Predicted membrane protein [Function unknown]; Region: COG4881 663917000237 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 663917000238 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 663917000239 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 663917000240 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 663917000241 conserved cys residue [active] 663917000242 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 663917000243 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 663917000244 putative NAD(P) binding site [chemical binding]; other site 663917000245 putative active site [active] 663917000246 PilZ domain; Region: PilZ; pfam07238 663917000247 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 663917000248 non-specific DNA binding site [nucleotide binding]; other site 663917000249 salt bridge; other site 663917000250 sequence-specific DNA binding site [nucleotide binding]; other site 663917000251 Cupin domain; Region: Cupin_2; pfam07883 663917000252 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 663917000253 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 663917000254 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 663917000255 protein binding site [polypeptide binding]; other site 663917000256 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 663917000257 protein binding site [polypeptide binding]; other site 663917000258 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 663917000259 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 663917000260 RNA binding surface [nucleotide binding]; other site 663917000261 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 663917000262 active site 663917000263 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 663917000264 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 663917000265 hypothetical protein; Provisional; Region: PRK07550 663917000266 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 663917000267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917000268 homodimer interface [polypeptide binding]; other site 663917000269 catalytic residue [active] 663917000270 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 663917000271 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 663917000272 FAD binding pocket [chemical binding]; other site 663917000273 FAD binding motif [chemical binding]; other site 663917000274 phosphate binding motif [ion binding]; other site 663917000275 beta-alpha-beta structure motif; other site 663917000276 NAD binding pocket [chemical binding]; other site 663917000277 Iron coordination center [ion binding]; other site 663917000278 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 663917000279 4Fe-4S binding domain; Region: Fer4; pfam00037 663917000280 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 663917000281 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 663917000282 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 663917000283 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 663917000284 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 663917000285 Cysteine-rich domain; Region: CCG; pfam02754 663917000286 Cysteine-rich domain; Region: CCG; pfam02754 663917000287 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 663917000288 conserved nucleotide sequence; KN400_R0107 663917000289 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 663917000290 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 663917000291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000292 Walker A/P-loop; other site 663917000293 ATP binding site [chemical binding]; other site 663917000294 Q-loop/lid; other site 663917000295 ABC transporter signature motif; other site 663917000296 Walker B; other site 663917000297 D-loop; other site 663917000298 H-loop/switch region; other site 663917000299 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 663917000300 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 663917000301 Walker A motif; other site 663917000302 ATP binding site [chemical binding]; other site 663917000303 Walker B motif; other site 663917000304 arginine finger; other site 663917000305 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 663917000306 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 663917000307 hypothetical protein; Validated; Region: PRK00153 663917000308 recombination protein RecR; Reviewed; Region: recR; PRK00076 663917000309 RecR protein; Region: RecR; pfam02132 663917000310 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 663917000311 putative active site [active] 663917000312 putative metal-binding site [ion binding]; other site 663917000313 tetramer interface [polypeptide binding]; other site 663917000314 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 663917000315 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 663917000316 dimer interface [polypeptide binding]; other site 663917000317 PYR/PP interface [polypeptide binding]; other site 663917000318 TPP binding site [chemical binding]; other site 663917000319 substrate binding site [chemical binding]; other site 663917000320 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 663917000321 Domain of unknown function; Region: EKR; pfam10371 663917000322 4Fe-4S binding domain; Region: Fer4_6; pfam12837 663917000323 4Fe-4S binding domain; Region: Fer4; pfam00037 663917000324 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 663917000325 TPP-binding site [chemical binding]; other site 663917000326 dimer interface [polypeptide binding]; other site 663917000327 conserved nucleotide sequence; KN400_R0108 663917000328 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 663917000329 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 663917000330 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 663917000331 G1 box; other site 663917000332 GTP/Mg2+ binding site [chemical binding]; other site 663917000333 G2 box; other site 663917000334 Switch I region; other site 663917000335 G3 box; other site 663917000336 Switch II region; other site 663917000337 G4 box; other site 663917000338 G5 box; other site 663917000339 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 663917000340 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 663917000341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000342 Walker A/P-loop; other site 663917000343 ATP binding site [chemical binding]; other site 663917000344 Q-loop/lid; other site 663917000345 ABC transporter signature motif; other site 663917000346 Walker B; other site 663917000347 D-loop; other site 663917000348 H-loop/switch region; other site 663917000349 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 663917000350 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 663917000351 G1 box; other site 663917000352 putative GEF interaction site [polypeptide binding]; other site 663917000353 GTP/Mg2+ binding site [chemical binding]; other site 663917000354 Switch I region; other site 663917000355 G2 box; other site 663917000356 G3 box; other site 663917000357 Switch II region; other site 663917000358 G4 box; other site 663917000359 G5 box; other site 663917000360 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 663917000361 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 663917000362 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 663917000363 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 663917000364 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917000365 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 663917000366 ATP binding site [chemical binding]; other site 663917000367 Mg2+ binding site [ion binding]; other site 663917000368 G-X-G motif; other site 663917000369 Response regulator receiver domain; Region: Response_reg; pfam00072 663917000370 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 663917000371 active site 663917000372 phosphorylation site [posttranslational modification] 663917000373 intermolecular recognition site; other site 663917000374 dimerization interface [polypeptide binding]; other site 663917000375 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 663917000376 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 663917000377 Magnesium ion binding site [ion binding]; other site 663917000378 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 663917000379 ParB-like nuclease domain; Region: ParB; smart00470 663917000380 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 663917000381 conserved nucleotide sequence; KN400_R0109 663917000382 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 663917000383 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 663917000384 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 663917000385 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 663917000386 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 663917000387 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 663917000388 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 663917000389 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 663917000390 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 663917000391 beta subunit interaction interface [polypeptide binding]; other site 663917000392 Walker A motif; other site 663917000393 ATP binding site [chemical binding]; other site 663917000394 Walker B motif; other site 663917000395 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 663917000396 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 663917000397 core domain interface [polypeptide binding]; other site 663917000398 delta subunit interface [polypeptide binding]; other site 663917000399 epsilon subunit interface [polypeptide binding]; other site 663917000400 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 663917000401 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 663917000402 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 663917000403 alpha subunit interaction interface [polypeptide binding]; other site 663917000404 Walker A motif; other site 663917000405 ATP binding site [chemical binding]; other site 663917000406 Walker B motif; other site 663917000407 inhibitor binding site; inhibition site 663917000408 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 663917000409 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 663917000410 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 663917000411 gamma subunit interface [polypeptide binding]; other site 663917000412 epsilon subunit interface [polypeptide binding]; other site 663917000413 LBP interface [polypeptide binding]; other site 663917000414 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 663917000415 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 663917000416 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 663917000417 Transglycosylase; Region: Transgly; pfam00912 663917000418 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 663917000419 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 663917000420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917000421 homodimer interface [polypeptide binding]; other site 663917000422 catalytic residue [active] 663917000423 conserved nucleotide sequence; KN400_R0110 663917000424 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 663917000425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 663917000426 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 663917000427 active site 663917000428 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 663917000429 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 663917000430 putative substrate-binding site; other site 663917000431 nickel binding site [ion binding]; other site 663917000432 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 663917000433 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 663917000434 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 663917000435 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 663917000436 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 663917000437 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 663917000438 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 663917000439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917000440 active site 663917000441 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 663917000442 4Fe-4S binding domain; Region: Fer4_5; pfam12801 663917000443 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 663917000444 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917000445 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 663917000446 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine 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_II; cd01993 663917000447 Ligand Binding Site [chemical binding]; other site 663917000448 TIGR00269 family protein; Region: TIGR00269 663917000449 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 663917000450 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 663917000451 ATP binding site [chemical binding]; other site 663917000452 putative Mg++ binding site [ion binding]; other site 663917000453 helicase superfamily c-terminal domain; Region: HELICc; smart00490 663917000454 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 663917000455 active site 663917000456 catalytic residues [active] 663917000457 metal binding site [ion binding]; metal-binding site 663917000458 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 663917000459 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 663917000460 putative active site [active] 663917000461 substrate binding site [chemical binding]; other site 663917000462 putative cosubstrate binding site; other site 663917000463 catalytic site [active] 663917000464 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 663917000465 substrate binding site [chemical binding]; other site 663917000466 Protein of unknown function DUF116; Region: DUF116; pfam01976 663917000467 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 663917000468 Putative exonuclease, RdgC; Region: RdgC; cl01122 663917000469 ribonuclease Z; Provisional; Region: PRK02126 663917000470 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 663917000471 dimer interface [polypeptide binding]; other site 663917000472 active site 663917000473 Schiff base residues; other site 663917000474 Predicted membrane protein [Function unknown]; Region: COG2259 663917000475 PilZ domain; Region: PilZ; pfam07238 663917000476 conserved nucleotide sequence; KN400_R0111 663917000477 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 663917000478 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 663917000479 G1 box; other site 663917000480 putative GEF interaction site [polypeptide binding]; other site 663917000481 GTP/Mg2+ binding site [chemical binding]; other site 663917000482 Switch I region; other site 663917000483 G2 box; other site 663917000484 G3 box; other site 663917000485 Switch II region; other site 663917000486 G4 box; other site 663917000487 G5 box; other site 663917000488 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 663917000489 palindrome; KN400_R0112 663917000490 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 663917000491 AIR carboxylase; Region: AIRC; smart01001 663917000492 hypothetical protein; Provisional; Region: PRK04194 663917000493 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 663917000494 tetramer interfaces [polypeptide binding]; other site 663917000495 binuclear metal-binding site [ion binding]; other site 663917000496 competence damage-inducible protein A; Provisional; Region: PRK00549 663917000497 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 663917000498 putative MPT binding site; other site 663917000499 Competence-damaged protein; Region: CinA; pfam02464 663917000500 PAS domain S-box; Region: sensory_box; TIGR00229 663917000501 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 663917000502 putative active site [active] 663917000503 heme pocket [chemical binding]; other site 663917000504 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917000505 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917000506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917000507 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 663917000508 dimer interface [polypeptide binding]; other site 663917000509 phosphorylation site [posttranslational modification] 663917000510 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 663917000511 ATP binding site [chemical binding]; other site 663917000512 Mg2+ binding site [ion binding]; other site 663917000513 G-X-G motif; other site 663917000514 conserved nucleotide sequence; KN400_R0113 663917000515 recombinase A; Provisional; Region: recA; PRK09354 663917000516 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 663917000517 hexamer interface [polypeptide binding]; other site 663917000518 Walker A motif; other site 663917000519 ATP binding site [chemical binding]; other site 663917000520 Walker B motif; other site 663917000521 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 663917000522 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 663917000523 Walker A motif; other site 663917000524 ATP binding site [chemical binding]; other site 663917000525 Walker B motif; other site 663917000526 recombination regulator RecX; Reviewed; Region: recX; PRK00117 663917000527 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 663917000528 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 663917000529 motif 1; other site 663917000530 active site 663917000531 motif 2; other site 663917000532 motif 3; other site 663917000533 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 663917000534 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 663917000535 DHHA1 domain; Region: DHHA1; pfam02272 663917000536 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 663917000537 active site 663917000538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917000539 phosphorylation site [posttranslational modification] 663917000540 intermolecular recognition site; other site 663917000541 dimerization interface [polypeptide binding]; other site 663917000542 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 663917000543 dimer interface [polypeptide binding]; other site 663917000544 phosphorylation site [posttranslational modification] 663917000545 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 663917000546 ATP binding site [chemical binding]; other site 663917000547 Mg2+ binding site [ion binding]; other site 663917000548 G-X-G motif; other site 663917000549 conserved nucleotide sequence; KN400_R0114 663917000550 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 663917000551 feedback inhibition sensing region; other site 663917000552 homohexameric interface [polypeptide binding]; other site 663917000553 nucleotide binding site [chemical binding]; other site 663917000554 N-acetyl-L-glutamate binding site [chemical binding]; other site 663917000555 acetylornithine aminotransferase; Provisional; Region: PRK02627 663917000556 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 663917000557 inhibitor-cofactor binding pocket; inhibition site 663917000558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917000559 catalytic residue [active] 663917000560 ornithine carbamoyltransferase; Provisional; Region: PRK00779 663917000561 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 663917000562 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 663917000563 argininosuccinate synthase; Provisional; Region: PRK13820 663917000564 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 663917000565 ANP binding site [chemical binding]; other site 663917000566 Substrate Binding Site II [chemical binding]; other site 663917000567 Substrate Binding Site I [chemical binding]; other site 663917000568 conserved nucleotide sequence; KN400_R0115 663917000569 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 663917000570 nudix motif; other site 663917000571 argininosuccinate lyase; Provisional; Region: PRK00855 663917000572 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 663917000573 active sites [active] 663917000574 tetramer interface [polypeptide binding]; other site 663917000575 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 663917000576 Interdomain contacts; other site 663917000577 Cytokine receptor motif; other site 663917000578 conserved nucleotide sequence; KN400_R0116 663917000579 diaminopimelate decarboxylase; Region: lysA; TIGR01048 663917000580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 663917000581 active site 663917000582 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 663917000583 substrate binding site [chemical binding]; other site 663917000584 catalytic residues [active] 663917000585 dimer interface [polypeptide binding]; other site 663917000586 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 663917000587 dihydrodipicolinate synthase; Region: dapA; TIGR00674 663917000588 dimer interface [polypeptide binding]; other site 663917000589 active site 663917000590 catalytic residue [active] 663917000591 dihydrodipicolinate reductase; Provisional; Region: PRK00048 663917000592 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 663917000593 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 663917000594 conserved nucleotide sequence; KN400_R0056 663917000595 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 663917000596 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 663917000597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917000598 homodimer interface [polypeptide binding]; other site 663917000599 catalytic residue [active] 663917000600 Predicted transcriptional regulator [Transcription]; Region: COG4190 663917000601 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 663917000602 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 663917000603 Transposase IS200 like; Region: Y1_Tnp; cl00848 663917000604 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 663917000605 Fic family protein [Function unknown]; Region: COG3177 663917000606 Fic/DOC family; Region: Fic; pfam02661 663917000607 MarR family; Region: MarR_2; pfam12802 663917000608 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 663917000609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000610 Walker A/P-loop; other site 663917000611 ATP binding site [chemical binding]; other site 663917000612 Q-loop/lid; other site 663917000613 ABC transporter signature motif; other site 663917000614 Walker B; other site 663917000615 D-loop; other site 663917000616 H-loop/switch region; other site 663917000617 ABC transporter; Region: ABC_tran_2; pfam12848 663917000618 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917000619 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 663917000620 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 663917000621 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 663917000622 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 663917000623 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 663917000624 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 663917000625 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 663917000626 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 663917000627 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 663917000628 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917000629 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917000630 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 663917000631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 663917000632 Coenzyme A binding pocket [chemical binding]; other site 663917000633 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 663917000634 Predicted transcriptional regulators [Transcription]; Region: COG1733 663917000635 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 663917000636 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 663917000637 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 663917000638 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 663917000639 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 663917000640 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917000641 binding surface 663917000642 TPR motif; other site 663917000643 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 663917000644 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917000645 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 663917000646 Sporulation related domain; Region: SPOR; pfam05036 663917000647 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 663917000648 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 663917000649 motif II; other site 663917000650 Major Facilitator Superfamily; Region: MFS_1; pfam07690 663917000651 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 663917000652 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 663917000653 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 663917000654 Major Facilitator Superfamily; Region: MFS_1; pfam07690 663917000655 palindrome; KN400_R0117 663917000656 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 663917000657 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 663917000658 ATP binding site [chemical binding]; other site 663917000659 Mg++ binding site [ion binding]; other site 663917000660 motif III; other site 663917000661 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 663917000662 nucleotide binding region [chemical binding]; other site 663917000663 ATP-binding site [chemical binding]; other site 663917000664 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 663917000665 putative RNA binding site [nucleotide binding]; other site 663917000666 conserved palindrome; KN400_R0118 663917000667 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 663917000668 DNA-binding site [nucleotide binding]; DNA binding site 663917000669 RNA-binding motif; other site 663917000670 conserved nucleotide sequence; KN400_R0119 663917000671 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 663917000672 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 663917000673 Dodecin; Region: Dodecin; pfam07311 663917000674 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 663917000675 CoenzymeA binding site [chemical binding]; other site 663917000676 subunit interaction site [polypeptide binding]; other site 663917000677 PHB binding site; other site 663917000678 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 663917000679 malonic semialdehyde reductase; Provisional; Region: PRK10538 663917000680 putative NAD(P) binding site [chemical binding]; other site 663917000681 homodimer interface [polypeptide binding]; other site 663917000682 homotetramer interface [polypeptide binding]; other site 663917000683 active site 663917000684 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 663917000685 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 663917000686 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 663917000687 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 663917000688 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 663917000689 catalytic loop [active] 663917000690 iron binding site [ion binding]; other site 663917000691 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 663917000692 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 663917000693 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 663917000694 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 663917000695 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 663917000696 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 663917000697 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 663917000698 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 663917000699 XdhC Rossmann domain; Region: XdhC_C; pfam13478 663917000700 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 663917000701 metal-binding site 663917000702 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 663917000703 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917000704 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 663917000705 FeS/SAM binding site; other site 663917000706 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917000707 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917000708 Bacterial transcriptional repressor; Region: TetR; pfam13972 663917000709 zinc transporter ZupT; Provisional; Region: PRK04201 663917000710 ZIP Zinc transporter; Region: Zip; pfam02535 663917000711 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 663917000712 DNA-binding site [nucleotide binding]; DNA binding site 663917000713 RNA-binding motif; other site 663917000714 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 663917000715 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 663917000716 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 663917000717 zinc binding site [ion binding]; other site 663917000718 putative ligand binding site [chemical binding]; other site 663917000719 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 663917000720 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; cd06574 663917000721 TM-ABC transporter signature motif; other site 663917000722 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 663917000723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917000724 Walker A/P-loop; other site 663917000725 ATP binding site [chemical binding]; other site 663917000726 Q-loop/lid; other site 663917000727 ABC transporter signature motif; other site 663917000728 Walker B; other site 663917000729 D-loop; other site 663917000730 H-loop/switch region; other site 663917000731 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917000732 conserved nucleotide sequence; KN400_R0120 663917000733 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 663917000734 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 663917000735 Walker A motif; other site 663917000736 ATP binding site [chemical binding]; other site 663917000737 Walker B motif; other site 663917000738 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 663917000739 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 663917000740 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 663917000741 homodimer interface [polypeptide binding]; other site 663917000742 NADP binding site [chemical binding]; other site 663917000743 substrate binding site [chemical binding]; other site 663917000744 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 663917000745 putative FMN binding site [chemical binding]; other site 663917000746 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 663917000747 Cu(I) binding site [ion binding]; other site 663917000748 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 663917000749 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 663917000750 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 663917000751 Subunit I/III interface [polypeptide binding]; other site 663917000752 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 663917000753 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 663917000754 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 663917000755 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 663917000756 UbiA prenyltransferase family; Region: UbiA; pfam01040 663917000757 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 663917000758 L-lactate permease; Region: Lactate_perm; cl00701 663917000759 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 663917000760 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 663917000761 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 663917000762 cofactor binding site; other site 663917000763 DNA binding site [nucleotide binding] 663917000764 substrate interaction site [chemical binding]; other site 663917000765 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 663917000766 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 663917000767 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 663917000768 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 663917000769 dimer interface [polypeptide binding]; other site 663917000770 acyl-activating enzyme (AAE) consensus motif; other site 663917000771 putative active site [active] 663917000772 AMP binding site [chemical binding]; other site 663917000773 putative CoA binding site [chemical binding]; other site 663917000774 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 663917000775 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 663917000776 Walker A motif; other site 663917000777 ATP binding site [chemical binding]; other site 663917000778 Walker B motif; other site 663917000779 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 663917000780 hypothetical protein; Provisional; Region: PRK11239 663917000781 Protein of unknown function, DUF480; Region: DUF480; pfam04337 663917000782 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 663917000783 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 663917000784 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 663917000785 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 663917000786 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 663917000787 RNA binding site [nucleotide binding]; other site 663917000788 Protein of unknown function, DUF393; Region: DUF393; pfam04134 663917000789 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 663917000790 putative active site [active] 663917000791 putative catalytic site [active] 663917000792 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 663917000793 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 663917000794 B12 binding site [chemical binding]; other site 663917000795 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 663917000796 FeS/SAM binding site; other site 663917000797 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 663917000798 active site 663917000799 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 663917000800 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 663917000801 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917000802 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 663917000803 FeS/SAM binding site; other site 663917000804 Phosphopantetheine attachment site; Region: PP-binding; cl09936 663917000805 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 663917000806 putative acyl-acceptor binding pocket; other site 663917000807 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 663917000808 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 663917000809 FeS/SAM binding site; other site 663917000810 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 663917000811 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917000812 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 663917000813 Ligand binding site; other site 663917000814 Putative Catalytic site; other site 663917000815 DXD motif; other site 663917000816 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 663917000817 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 663917000818 putative active site [active] 663917000819 putative catalytic site [active] 663917000820 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 663917000821 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917000822 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 663917000823 FeS/SAM binding site; other site 663917000824 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 663917000825 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917000826 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 663917000827 FeS/SAM binding site; other site 663917000828 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 663917000829 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 663917000830 PAS domain; Region: PAS_9; pfam13426 663917000831 GAF domain; Region: GAF_2; pfam13185 663917000832 GAF domain; Region: GAF; pfam01590 663917000833 PAS domain S-box; Region: sensory_box; TIGR00229 663917000834 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 663917000835 putative active site [active] 663917000836 heme pocket [chemical binding]; other site 663917000837 PAS domain S-box; Region: sensory_box; TIGR00229 663917000838 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 663917000839 putative active site [active] 663917000840 heme pocket [chemical binding]; other site 663917000841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 663917000842 Histidine kinase; Region: HisKA_3; pfam07730 663917000843 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 663917000844 ATP binding site [chemical binding]; other site 663917000845 Mg2+ binding site [ion binding]; other site 663917000846 G-X-G motif; other site 663917000847 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 663917000848 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 663917000849 active site 663917000850 phosphorylation site [posttranslational modification] 663917000851 intermolecular recognition site; other site 663917000852 dimerization interface [polypeptide binding]; other site 663917000853 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 663917000854 DNA binding residues [nucleotide binding] 663917000855 dimerization interface [polypeptide binding]; other site 663917000856 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 663917000857 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 663917000858 putative active site [active] 663917000859 heme pocket [chemical binding]; other site 663917000860 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 663917000861 putative active site [active] 663917000862 heme pocket [chemical binding]; other site 663917000863 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 663917000864 dimer interface [polypeptide binding]; other site 663917000865 phosphorylation site [posttranslational modification] 663917000866 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 663917000867 ATP binding site [chemical binding]; other site 663917000868 Mg2+ binding site [ion binding]; other site 663917000869 G-X-G motif; other site 663917000870 Hemerythrin; Region: Hemerythrin; cd12107 663917000871 Fe binding site [ion binding]; other site 663917000872 Uncharacterized conserved protein [Function unknown]; Region: COG1359 663917000873 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 663917000874 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 663917000875 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 663917000876 Ligand Binding Site [chemical binding]; other site 663917000877 putative cation:proton antiport protein; Provisional; Region: PRK10669 663917000878 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 663917000879 TrkA-N domain; Region: TrkA_N; pfam02254 663917000880 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 663917000881 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 663917000882 putative substrate translocation pore; other site 663917000883 Membrane transport protein; Region: Mem_trans; cl09117 663917000884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 663917000885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917000886 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 663917000887 dimerization interface [polypeptide binding]; other site 663917000888 conserved nucleotide sequence; KN400_R0121 663917000889 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 663917000890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 663917000891 DNA-binding site [nucleotide binding]; DNA binding site 663917000892 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 663917000893 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 663917000894 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 663917000895 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 663917000896 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 663917000897 glutaminase active site [active] 663917000898 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 663917000899 dimer interface [polypeptide binding]; other site 663917000900 active site 663917000901 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 663917000902 dimer interface [polypeptide binding]; other site 663917000903 active site 663917000904 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14355 663917000905 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 663917000906 Substrate binding site; other site 663917000907 Mg++ binding site; other site 663917000908 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 663917000909 active site 663917000910 substrate binding site [chemical binding]; other site 663917000911 CoA binding site [chemical binding]; other site 663917000912 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 663917000913 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917000914 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 663917000915 FeS/SAM binding site; other site 663917000916 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917000917 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917000918 heme-binding residues [chemical binding]; other site 663917000919 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 663917000920 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917000921 conserved nucleotide sequence; KN400_R0122 663917000922 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 663917000923 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917000924 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917000925 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 663917000926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 663917000927 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 663917000928 Walker A/P-loop; other site 663917000929 ATP binding site [chemical binding]; other site 663917000930 Q-loop/lid; other site 663917000931 ABC transporter signature motif; other site 663917000932 Walker B; other site 663917000933 D-loop; other site 663917000934 H-loop/switch region; other site 663917000935 Outer membrane efflux protein; Region: OEP; pfam02321 663917000936 Outer membrane efflux protein; Region: OEP; pfam02321 663917000937 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 663917000938 Ca2+ binding site [ion binding]; other site 663917000939 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 663917000940 Ca2+ binding site [ion binding]; other site 663917000941 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 663917000942 Ca2+ binding site [ion binding]; other site 663917000943 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 663917000944 Ca2+ binding site [ion binding]; other site 663917000945 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 663917000946 Ca2+ binding site [ion binding]; other site 663917000947 Calx-beta domain; Region: Calx-beta; cl02522 663917000948 Calx-beta domain; Region: Calx-beta; cl02522 663917000949 Calx-beta domain; Region: Calx-beta; cl02522 663917000950 Calx-beta domain; Region: Calx-beta; cl02522 663917000951 Calx-beta domain; Region: Calx-beta; cl02522 663917000952 Calx-beta domain; Region: Calx-beta; cl02522 663917000953 Calx-beta domain; Region: Calx-beta; cl02522 663917000954 Calx-beta domain; Region: Calx-beta; cl02522 663917000955 Calx-beta domain; Region: Calx-beta; cl02522 663917000956 Calx-beta domain; Region: Calx-beta; cl02522 663917000957 Calx-beta domain; Region: Calx-beta; cl02522 663917000958 Calx-beta domain; Region: Calx-beta; cl02522 663917000959 Calx-beta domain; Region: Calx-beta; cl02522 663917000960 Calx-beta domain; Region: Calx-beta; cl02522 663917000961 Calx-beta domain; Region: Calx-beta; cl02522 663917000962 Calx-beta domain; Region: Calx-beta; cl02522 663917000963 Calx-beta domain; Region: Calx-beta; cl02522 663917000964 Calx-beta domain; Region: Calx-beta; cl02522 663917000965 Calx-beta domain; Region: Calx-beta; cl02522 663917000966 Calx-beta domain; Region: Calx-beta; cl02522 663917000967 Calx-beta domain; Region: Calx-beta; cl02522 663917000968 Calx-beta domain; Region: Calx-beta; cl02522 663917000969 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917000970 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 663917000971 active site 663917000972 phosphorylation site [posttranslational modification] 663917000973 intermolecular recognition site; other site 663917000974 dimerization interface [polypeptide binding]; other site 663917000975 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 663917000976 Walker A motif; other site 663917000977 ATP binding site [chemical binding]; other site 663917000978 Walker B motif; other site 663917000979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917000980 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917000981 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 663917000982 dimer interface [polypeptide binding]; other site 663917000983 phosphorylation site [posttranslational modification] 663917000984 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 663917000985 ATP binding site [chemical binding]; other site 663917000986 Mg2+ binding site [ion binding]; other site 663917000987 G-X-G motif; other site 663917000988 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917000989 GAF domain; Region: GAF_3; pfam13492 663917000990 GAF domain; Region: GAF; pfam01590 663917000991 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917000992 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 663917000993 dimer interface [polypeptide binding]; other site 663917000994 phosphorylation site [posttranslational modification] 663917000995 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 663917000996 ATP binding site [chemical binding]; other site 663917000997 Mg2+ binding site [ion binding]; other site 663917000998 G-X-G motif; other site 663917000999 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 663917001000 DNA repair protein RadA; Provisional; Region: PRK11823 663917001001 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 663917001002 Walker A motif/ATP binding site; other site 663917001003 ATP binding site [chemical binding]; other site 663917001004 Walker B motif; other site 663917001005 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 663917001006 HEAT repeats; Region: HEAT_2; pfam13646 663917001007 HEAT repeats; Region: HEAT_2; pfam13646 663917001008 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 663917001009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917001010 Zn2+ binding site [ion binding]; other site 663917001011 Mg2+ binding site [ion binding]; other site 663917001012 HEAT repeats; Region: HEAT_2; pfam13646 663917001013 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 663917001014 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 663917001015 dimer interface [polypeptide binding]; other site 663917001016 active site 663917001017 CoA binding pocket [chemical binding]; other site 663917001018 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 663917001019 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 663917001020 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 663917001021 active site 663917001022 phosphorylation site [posttranslational modification] 663917001023 intermolecular recognition site; other site 663917001024 dimerization interface [polypeptide binding]; other site 663917001025 CheB methylesterase; Region: CheB_methylest; pfam01339 663917001026 HDOD domain; Region: HDOD; pfam08668 663917001027 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917001028 Zn2+ binding site [ion binding]; other site 663917001029 Mg2+ binding site [ion binding]; other site 663917001030 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 663917001031 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 663917001032 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 663917001033 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 663917001034 putative binding surface; other site 663917001035 active site 663917001036 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 663917001037 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 663917001038 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 663917001039 ATP binding site [chemical binding]; other site 663917001040 Mg2+ binding site [ion binding]; other site 663917001041 G-X-G motif; other site 663917001042 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 663917001043 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917001044 putative CheA interaction surface; other site 663917001045 conserved nucleotide sequence; KN400_R0123 663917001046 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917001047 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 663917001048 active site 663917001049 phosphorylation site [posttranslational modification] 663917001050 intermolecular recognition site; other site 663917001051 dimerization interface [polypeptide binding]; other site 663917001052 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 663917001053 Walker A motif; other site 663917001054 ATP binding site [chemical binding]; other site 663917001055 Walker B motif; other site 663917001056 arginine finger; other site 663917001057 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 663917001058 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 663917001059 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 663917001060 N-acetyl-D-glucosamine binding site [chemical binding]; other site 663917001061 catalytic residue [active] 663917001062 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 663917001063 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 663917001064 dimerization interface [polypeptide binding]; other site 663917001065 PAS domain S-box; Region: sensory_box; TIGR00229 663917001066 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 663917001067 putative active site [active] 663917001068 heme pocket [chemical binding]; other site 663917001069 aminopeptidase N; Provisional; Region: pepN; PRK14015 663917001070 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 663917001071 active site 663917001072 Zn binding site [ion binding]; other site 663917001073 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 663917001074 Acylphosphatase; Region: Acylphosphatase; pfam00708 663917001075 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 663917001076 HypF finger; Region: zf-HYPF; pfam07503 663917001077 HypF finger; Region: zf-HYPF; pfam07503 663917001078 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 663917001079 HupF/HypC family; Region: HupF_HypC; pfam01455 663917001080 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 663917001081 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 663917001082 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 663917001083 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 663917001084 dimerization interface [polypeptide binding]; other site 663917001085 ATP binding site [chemical binding]; other site 663917001086 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 663917001087 active site 663917001088 nucleophile elbow; other site 663917001089 PilZ domain; Region: PilZ; pfam07238 663917001090 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 663917001091 HSP70 interaction site [polypeptide binding]; other site 663917001092 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917001093 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 663917001094 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 663917001095 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 663917001096 Peptidase family M48; Region: Peptidase_M48; pfam01435 663917001097 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 663917001098 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 663917001099 GspL periplasmic domain; Region: GspL_C; cl14909 663917001100 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 663917001101 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 663917001102 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 663917001103 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 663917001104 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 663917001105 type II secretion system protein F; Region: GspF; TIGR02120 663917001106 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 663917001107 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 663917001108 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917001109 type II secretion system protein E; Region: type_II_gspE; TIGR02533 663917001110 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 663917001111 Walker A motif; other site 663917001112 ATP binding site [chemical binding]; other site 663917001113 Walker B motif; other site 663917001114 type II secretion system protein D; Region: type_II_gspD; TIGR02517 663917001115 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 663917001116 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 663917001117 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 663917001118 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 663917001119 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 663917001120 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 663917001121 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 663917001122 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 663917001123 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 663917001124 protein binding site [polypeptide binding]; other site 663917001125 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 663917001126 protein binding site [polypeptide binding]; other site 663917001127 multifunctional aminopeptidase A; Provisional; Region: PRK00913 663917001128 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 663917001129 interface (dimer of trimers) [polypeptide binding]; other site 663917001130 Substrate-binding/catalytic site; other site 663917001131 Zn-binding sites [ion binding]; other site 663917001132 ATP synthase subunit C; Region: ATP-synt_C; cl00466 663917001133 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 663917001134 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 663917001135 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 663917001136 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 663917001137 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 663917001138 inhibitor-cofactor binding pocket; inhibition site 663917001139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917001140 catalytic residue [active] 663917001141 conserved nucleotide sequence; KN400_R0124 663917001142 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 663917001143 NADH dehydrogenase subunit B; Validated; Region: PRK06411 663917001144 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 663917001145 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 663917001146 NADH dehydrogenase subunit D; Validated; Region: PRK06075 663917001147 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 663917001148 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 663917001149 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 663917001150 putative dimer interface [polypeptide binding]; other site 663917001151 [2Fe-2S] cluster binding site [ion binding]; other site 663917001152 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 663917001153 dimer interface [polypeptide binding]; other site 663917001154 [2Fe-2S] cluster binding site [ion binding]; other site 663917001155 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 663917001156 SLBB domain; Region: SLBB; pfam10531 663917001157 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 663917001158 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917001159 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917001160 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 663917001161 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 663917001162 catalytic loop [active] 663917001163 iron binding site [ion binding]; other site 663917001164 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 663917001165 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 663917001166 [4Fe-4S] binding site [ion binding]; other site 663917001167 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 663917001168 molybdopterin cofactor binding site; other site 663917001169 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 663917001170 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 663917001171 4Fe-4S binding domain; Region: Fer4; pfam00037 663917001172 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 663917001173 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 663917001174 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 663917001175 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 663917001176 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 663917001177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917001178 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 663917001179 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 663917001180 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917001181 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 663917001182 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917001183 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 663917001184 dimer interface [polypeptide binding]; other site 663917001185 catalytic triad [active] 663917001186 peroxidatic and resolving cysteines [active] 663917001187 Predicted membrane protein [Function unknown]; Region: COG1238 663917001188 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 663917001189 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 663917001190 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 663917001191 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 663917001192 dimer interface [polypeptide binding]; other site 663917001193 phosphorylation site [posttranslational modification] 663917001194 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 663917001195 ATP binding site [chemical binding]; other site 663917001196 Mg2+ binding site [ion binding]; other site 663917001197 G-X-G motif; other site 663917001198 Cytochrome c552; Region: Cytochrom_C552; pfam02335 663917001199 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 663917001200 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 663917001201 PAS domain; Region: PAS_10; pfam13596 663917001202 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 663917001203 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 663917001204 Walker A motif; other site 663917001205 ATP binding site [chemical binding]; other site 663917001206 Walker B motif; other site 663917001207 arginine finger; other site 663917001208 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917001209 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 663917001210 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 663917001211 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917001212 ligand binding site [chemical binding]; other site 663917001213 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 663917001214 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 663917001215 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 663917001216 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 663917001217 conserved nucleotide sequence; KN400_R0125 663917001218 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917001219 heme-binding residues [chemical binding]; other site 663917001220 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917001221 heme-binding residues [chemical binding]; other site 663917001222 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 663917001223 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 663917001224 non-specific DNA binding site [nucleotide binding]; other site 663917001225 salt bridge; other site 663917001226 sequence-specific DNA binding site [nucleotide binding]; other site 663917001227 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 663917001228 Surface antigen; Region: Bac_surface_Ag; pfam01103 663917001229 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 663917001230 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 663917001231 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 663917001232 putative homodimer interface [polypeptide binding]; other site 663917001233 putative active site pocket [active] 663917001234 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 663917001235 conserved nucleotide sequence; KN400_R0126 663917001236 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917001237 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 663917001238 active site 663917001239 phosphorylation site [posttranslational modification] 663917001240 intermolecular recognition site; other site 663917001241 dimerization interface [polypeptide binding]; other site 663917001242 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 663917001243 Walker A motif; other site 663917001244 ATP binding site [chemical binding]; other site 663917001245 Walker B motif; other site 663917001246 arginine finger; other site 663917001247 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917001248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917001249 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 663917001250 dimerization interface [polypeptide binding]; other site 663917001251 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 663917001252 dimer interface [polypeptide binding]; other site 663917001253 phosphorylation site [posttranslational modification] 663917001254 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 663917001255 ATP binding site [chemical binding]; other site 663917001256 Mg2+ binding site [ion binding]; other site 663917001257 G-X-G motif; other site 663917001258 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 663917001259 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 663917001260 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 663917001261 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 663917001262 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 663917001263 lipoyl attachment site [posttranslational modification]; other site 663917001264 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 663917001265 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 663917001266 tetramer interface [polypeptide binding]; other site 663917001267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917001268 catalytic residue [active] 663917001269 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 663917001270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917001271 catalytic residue [active] 663917001272 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 663917001273 lipoyl synthase; Provisional; Region: PRK05481 663917001274 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 663917001275 OsmC-like protein; Region: OsmC; pfam02566 663917001276 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 663917001277 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 663917001278 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917001279 diiron binding motif [ion binding]; other site 663917001280 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 663917001281 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 663917001282 putative NAD(P) binding site [chemical binding]; other site 663917001283 active site 663917001284 hypothetical protein; Reviewed; Region: PRK00024 663917001285 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 663917001286 MPN+ (JAMM) motif; other site 663917001287 Zinc-binding site [ion binding]; other site 663917001288 Bacitracin resistance protein BacA; Region: BacA; pfam02673 663917001289 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 663917001290 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 663917001291 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 663917001292 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 663917001293 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 663917001294 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917001295 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 663917001296 Protein export membrane protein; Region: SecD_SecF; cl14618 663917001297 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 663917001298 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 663917001299 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 663917001300 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 663917001301 active site residue [active] 663917001302 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 663917001303 dimerization interface [polypeptide binding]; other site 663917001304 putative DNA binding site [nucleotide binding]; other site 663917001305 putative Zn2+ binding site [ion binding]; other site 663917001306 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 663917001307 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 663917001308 dimerization interface [polypeptide binding]; other site 663917001309 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917001310 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917001311 dimer interface [polypeptide binding]; other site 663917001312 putative CheW interface [polypeptide binding]; other site 663917001313 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 663917001314 dimerization interface [polypeptide binding]; other site 663917001315 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917001316 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917001317 dimer interface [polypeptide binding]; other site 663917001318 putative CheW interface [polypeptide binding]; other site 663917001319 Hemerythrin; Region: Hemerythrin; cd12107 663917001320 Fe binding site [ion binding]; other site 663917001321 Response regulator receiver domain; Region: Response_reg; pfam00072 663917001322 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 663917001323 active site 663917001324 phosphorylation site [posttranslational modification] 663917001325 intermolecular recognition site; other site 663917001326 dimerization interface [polypeptide binding]; other site 663917001327 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 663917001328 Response regulator receiver domain; Region: Response_reg; pfam00072 663917001329 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 663917001330 active site 663917001331 phosphorylation site [posttranslational modification] 663917001332 dimerization interface [polypeptide binding]; other site 663917001333 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 663917001334 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 663917001335 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 663917001336 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 663917001337 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 663917001338 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 663917001339 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 663917001340 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 663917001341 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 663917001342 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 663917001343 FliG C-terminal domain; Region: FliG_C; pfam01706 663917001344 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 663917001345 Flagellar assembly protein FliH; Region: FliH; pfam02108 663917001346 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 663917001347 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 663917001348 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 663917001349 Walker A motif/ATP binding site; other site 663917001350 Walker B motif; other site 663917001351 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 663917001352 MgtE intracellular N domain; Region: MgtE_N; cl15244 663917001353 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 663917001354 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 663917001355 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 663917001356 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 663917001357 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 663917001358 conserved nucleotide sequence; KN400_R0127 663917001359 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 663917001360 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 663917001361 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 663917001362 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 663917001363 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 663917001364 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 663917001365 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 663917001366 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 663917001367 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 663917001368 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 663917001369 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 663917001370 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 663917001371 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 663917001372 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 663917001373 Bacterial SH3 domain; Region: SH3_3; pfam08239 663917001374 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 663917001375 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 663917001376 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 663917001377 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 663917001378 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 663917001379 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 663917001380 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 663917001381 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 663917001382 Clp amino terminal domain; Region: Clp_N; pfam02861 663917001383 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 663917001384 Walker A motif; other site 663917001385 ATP binding site [chemical binding]; other site 663917001386 Walker B motif; other site 663917001387 arginine finger; other site 663917001388 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 663917001389 Walker A motif; other site 663917001390 ATP binding site [chemical binding]; other site 663917001391 Walker B motif; other site 663917001392 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 663917001393 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 663917001394 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 663917001395 Ligand Binding Site [chemical binding]; other site 663917001396 conserved nucleotide sequence; KN400_R0128 663917001397 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917001398 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 663917001399 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 663917001400 Walker A motif; other site 663917001401 ATP binding site [chemical binding]; other site 663917001402 Walker B motif; other site 663917001403 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 663917001404 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 663917001405 Walker A motif; other site 663917001406 ATP binding site [chemical binding]; other site 663917001407 Walker B motif; other site 663917001408 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 663917001409 active site 663917001410 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 663917001411 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 663917001412 cofactor binding site; other site 663917001413 DNA binding site [nucleotide binding] 663917001414 substrate interaction site [chemical binding]; other site 663917001415 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 663917001416 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 663917001417 prenyltransferase; Reviewed; Region: ubiA; PRK12886 663917001418 UbiA prenyltransferase family; Region: UbiA; pfam01040 663917001419 Flavoprotein; Region: Flavoprotein; pfam02441 663917001420 aromatic acid decarboxylase; Validated; Region: PRK05920 663917001421 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 663917001422 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 663917001423 FeS/SAM binding site; other site 663917001424 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 663917001425 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 663917001426 FeS/SAM binding site; other site 663917001427 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 663917001428 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 663917001429 catalytic site [active] 663917001430 putative active site [active] 663917001431 putative substrate binding site [chemical binding]; other site 663917001432 HRDC domain; Region: HRDC; pfam00570 663917001433 HRDC domain; Region: HRDC; pfam00570 663917001434 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 663917001435 RNA methyltransferase, RsmE family; Region: TIGR00046 663917001436 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 663917001437 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 663917001438 S-adenosylmethionine binding site [chemical binding]; other site 663917001439 conserved nucleotide sequence; KN400_R0129 663917001440 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 663917001441 amidohydrolase; Region: amidohydrolases; TIGR01891 663917001442 metal binding site [ion binding]; metal-binding site 663917001443 PEP synthetase regulatory protein; Provisional; Region: PRK05339 663917001444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 663917001445 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 663917001446 active site 663917001447 phosphorylation site [posttranslational modification] 663917001448 intermolecular recognition site; other site 663917001449 dimerization interface [polypeptide binding]; other site 663917001450 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 663917001451 DNA binding site [nucleotide binding] 663917001452 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 663917001453 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 663917001454 dimerization interface [polypeptide binding]; other site 663917001455 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 663917001456 dimer interface [polypeptide binding]; other site 663917001457 phosphorylation site [posttranslational modification] 663917001458 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 663917001459 ATP binding site [chemical binding]; other site 663917001460 Mg2+ binding site [ion binding]; other site 663917001461 G-X-G motif; other site 663917001462 futalosine nucleosidase; Region: fut_nucase; TIGR03664 663917001463 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 663917001464 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 663917001465 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 663917001466 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 663917001467 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 663917001468 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 663917001469 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 663917001470 active site 2 [active] 663917001471 active site 1 [active] 663917001472 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 663917001473 active site 663917001474 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 663917001475 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 663917001476 dimer interface [polypeptide binding]; other site 663917001477 active site 663917001478 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 663917001479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 663917001480 NAD(P) binding site [chemical binding]; other site 663917001481 active site 663917001482 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 663917001483 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 663917001484 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 663917001485 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 663917001486 RNA binding surface [nucleotide binding]; other site 663917001487 elongation factor P; Provisional; Region: PRK14578 663917001488 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 663917001489 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 663917001490 RNA binding site [nucleotide binding]; other site 663917001491 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 663917001492 RNA binding site [nucleotide binding]; other site 663917001493 integrase; Provisional; Region: PRK09692 663917001494 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 663917001495 active site 663917001496 Int/Topo IB signature motif; other site 663917001497 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 663917001498 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 663917001499 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 663917001500 active site 663917001501 catalytic residues [active] 663917001502 DNA binding site [nucleotide binding] 663917001503 Int/Topo IB signature motif; other site 663917001504 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 663917001505 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 663917001506 Divergent AAA domain; Region: AAA_4; pfam04326 663917001507 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 663917001508 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 663917001509 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 663917001510 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 663917001511 ATP binding site [chemical binding]; other site 663917001512 putative Mg++ binding site [ion binding]; other site 663917001513 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 663917001514 Predicted PP-loop superfamily ATPase [General function prediction only]; Region: COG0603 663917001515 Ligand Binding Site [chemical binding]; other site 663917001516 HsdM N-terminal domain; Region: HsdM_N; pfam12161 663917001517 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 663917001518 Methyltransferase domain; Region: Methyltransf_26; pfam13659 663917001519 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 663917001520 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 663917001521 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917001522 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 663917001523 active site 663917001524 phosphorylation site [posttranslational modification] 663917001525 intermolecular recognition site; other site 663917001526 dimerization interface [polypeptide binding]; other site 663917001527 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 663917001528 Walker A motif; other site 663917001529 ATP binding site [chemical binding]; other site 663917001530 Walker B motif; other site 663917001531 arginine finger; other site 663917001532 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917001533 sensor protein ZraS; Provisional; Region: PRK10364 663917001534 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 663917001535 dimer interface [polypeptide binding]; other site 663917001536 phosphorylation site [posttranslational modification] 663917001537 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 663917001538 ATP binding site [chemical binding]; other site 663917001539 Mg2+ binding site [ion binding]; other site 663917001540 G-X-G motif; other site 663917001541 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 663917001542 putative hydrophobic ligand binding site [chemical binding]; other site 663917001543 Predicted transcriptional regulator [Transcription]; Region: COG2378 663917001544 HTH domain; Region: HTH_11; pfam08279 663917001545 WYL domain; Region: WYL; pfam13280 663917001546 PAS domain S-box; Region: sensory_box; TIGR00229 663917001547 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 663917001548 putative active site [active] 663917001549 heme pocket [chemical binding]; other site 663917001550 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 663917001551 PAS domain; Region: PAS_9; pfam13426 663917001552 putative active site [active] 663917001553 heme pocket [chemical binding]; other site 663917001554 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917001555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917001556 metal binding site [ion binding]; metal-binding site 663917001557 active site 663917001558 I-site; other site 663917001559 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 663917001560 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 663917001561 putative active site [active] 663917001562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917001563 heme pocket [chemical binding]; other site 663917001564 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 663917001565 dimer interface [polypeptide binding]; other site 663917001566 phosphorylation site [posttranslational modification] 663917001567 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 663917001568 ATP binding site [chemical binding]; other site 663917001569 Mg2+ binding site [ion binding]; other site 663917001570 G-X-G motif; other site 663917001571 Uncharacterized conserved protein [Function unknown]; Region: COG1565 663917001572 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 663917001573 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 663917001574 motif II; other site 663917001575 Uncharacterized conserved protein [Function unknown]; Region: COG1633 663917001576 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917001577 diiron binding motif [ion binding]; other site 663917001578 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 663917001579 Aspartase; Region: Aspartase; cd01357 663917001580 active sites [active] 663917001581 tetramer interface [polypeptide binding]; other site 663917001582 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 663917001583 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 663917001584 putative active site [active] 663917001585 catalytic site [active] 663917001586 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 663917001587 PLD-like domain; Region: PLDc_2; pfam13091 663917001588 putative active site [active] 663917001589 catalytic site [active] 663917001590 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 663917001591 Ligand Binding Site [chemical binding]; other site 663917001592 putative GTP cyclohydrolase; Provisional; Region: PRK13674 663917001593 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 663917001594 threonine dehydratase; Provisional; Region: PRK08198 663917001595 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 663917001596 tetramer interface [polypeptide binding]; other site 663917001597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917001598 catalytic residue [active] 663917001599 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 663917001600 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 663917001601 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 663917001602 thioredoxin reductase; Provisional; Region: PRK10262 663917001603 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 663917001604 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917001605 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 663917001606 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 663917001607 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 663917001608 Walker A motif; other site 663917001609 ATP binding site [chemical binding]; other site 663917001610 Walker B motif; other site 663917001611 arginine finger; other site 663917001612 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 663917001613 conserved nucleotide sequence; KN400_R0130 663917001614 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 663917001615 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 663917001616 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 663917001617 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 663917001618 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 663917001619 ATP binding site [chemical binding]; other site 663917001620 putative Mg++ binding site [ion binding]; other site 663917001621 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 663917001622 nucleotide binding region [chemical binding]; other site 663917001623 ATP-binding site [chemical binding]; other site 663917001624 conserved nucleotide sequence; KN400_R0131 663917001625 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 663917001626 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 663917001627 active site 663917001628 DNA binding site [nucleotide binding] 663917001629 Int/Topo IB signature motif; other site 663917001630 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 663917001631 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 663917001632 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917001633 Uncharacterized conserved protein [Function unknown]; Region: COG2006 663917001634 Domain of unknown function (DUF362); Region: DUF362; pfam04015 663917001635 4Fe-4S binding domain; Region: Fer4; pfam00037 663917001636 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 663917001637 conserved nucleotide sequence; KN400_R0132 663917001638 macrolide transporter subunit MacA; Provisional; Region: PRK11578 663917001639 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917001640 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917001641 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917001642 Walker A/P-loop; other site 663917001643 ATP binding site [chemical binding]; other site 663917001644 Q-loop/lid; other site 663917001645 ABC transporter signature motif; other site 663917001646 Walker B; other site 663917001647 D-loop; other site 663917001648 H-loop/switch region; other site 663917001649 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917001650 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 663917001651 FtsX-like permease family; Region: FtsX; pfam02687 663917001652 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 663917001653 Peptidase family M23; Region: Peptidase_M23; pfam01551 663917001654 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 663917001655 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 663917001656 G1 box; other site 663917001657 putative GEF interaction site [polypeptide binding]; other site 663917001658 GTP/Mg2+ binding site [chemical binding]; other site 663917001659 Switch I region; other site 663917001660 G2 box; other site 663917001661 G3 box; other site 663917001662 Switch II region; other site 663917001663 G4 box; other site 663917001664 G5 box; other site 663917001665 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 663917001666 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 663917001667 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 663917001668 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 663917001669 binding surface 663917001670 TPR motif; other site 663917001671 SnoaL-like domain; Region: SnoaL_3; pfam13474 663917001672 camphor resistance protein CrcB; Provisional; Region: PRK14222 663917001673 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 663917001674 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 663917001675 active site residue [active] 663917001676 Methylamine utilisation protein MauE; Region: MauE; pfam07291 663917001677 membrane protein; Provisional; Region: PRK14393 663917001678 YceG-like family; Region: YceG; pfam02618 663917001679 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 663917001680 dimerization interface [polypeptide binding]; other site 663917001681 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 663917001682 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 663917001683 catalytic loop [active] 663917001684 iron binding site [ion binding]; other site 663917001685 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 663917001686 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 663917001687 molybdopterin cofactor binding site; other site 663917001688 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 663917001689 molybdopterin cofactor binding site; other site 663917001690 conserved nucleotide sequence; KN400_R0133 663917001691 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 663917001692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 663917001693 conserved nucleotide sequence; KN400_R0134 663917001694 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 663917001695 Protein of unknown function (DUF342); Region: DUF342; pfam03961 663917001696 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 663917001697 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 663917001698 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 663917001699 CoA-binding site [chemical binding]; other site 663917001700 ATP-binding [chemical binding]; other site 663917001701 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 663917001702 Transcriptional regulator [Transcription]; Region: IclR; COG1414 663917001703 Bacterial transcriptional regulator; Region: IclR; pfam01614 663917001704 conserved nucleotide sequence; KN400_R0135 663917001705 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 663917001706 Ligand Binding Site [chemical binding]; other site 663917001707 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 663917001708 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 663917001709 AP (apurinic/apyrimidinic) site pocket; other site 663917001710 DNA interaction; other site 663917001711 Metal-binding active site; metal-binding site 663917001712 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 663917001713 metal binding triad; other site 663917001714 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 663917001715 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 663917001716 Na binding site [ion binding]; other site 663917001717 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 663917001718 Uncharacterized conserved protein [Function unknown]; Region: COG0585 663917001719 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 663917001720 active site 663917001721 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 663917001722 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 663917001723 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 663917001724 S-adenosylmethionine binding site [chemical binding]; other site 663917001725 major capsid protein; Region: PHA00201 663917001726 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 663917001727 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 663917001728 ATP binding site [chemical binding]; other site 663917001729 Mg++ binding site [ion binding]; other site 663917001730 motif III; other site 663917001731 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 663917001732 nucleotide binding region [chemical binding]; other site 663917001733 ATP-binding site [chemical binding]; other site 663917001734 aminodeoxychorismate synthase; Provisional; Region: PRK07508 663917001735 chorismate binding enzyme; Region: Chorismate_bind; cl10555 663917001736 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 663917001737 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 663917001738 substrate-cofactor binding pocket; other site 663917001739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917001740 homodimer interface [polypeptide binding]; other site 663917001741 catalytic residue [active] 663917001742 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 663917001743 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 663917001744 putative active site [active] 663917001745 dimerization interface [polypeptide binding]; other site 663917001746 putative tRNAtyr binding site [nucleotide binding]; other site 663917001747 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 663917001748 putative ADP-ribose binding site [chemical binding]; other site 663917001749 putative active site [active] 663917001750 Ion channel; Region: Ion_trans_2; pfam07885 663917001751 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 663917001752 TrkA-N domain; Region: TrkA_N; pfam02254 663917001753 TrkA-C domain; Region: TrkA_C; pfam02080 663917001754 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 663917001755 TrkA-N domain; Region: TrkA_N; pfam02254 663917001756 TrkA-C domain; Region: TrkA_C; pfam02080 663917001757 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 663917001758 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917001759 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 663917001760 putative FMN binding site [chemical binding]; other site 663917001761 endonuclease IV; Provisional; Region: PRK01060 663917001762 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; cd00019 663917001763 AP (apurinic/apyrimidinic) site pocket; other site 663917001764 DNA interaction; other site 663917001765 Metal-binding active site; metal-binding site 663917001766 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 663917001767 nucleotide binding site/active site [active] 663917001768 HIT family signature motif; other site 663917001769 catalytic residue [active] 663917001770 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 663917001771 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 663917001772 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 663917001773 Transcriptional regulator; Region: Rrf2; cl17282 663917001774 Rrf2 family protein; Region: rrf2_super; TIGR00738 663917001775 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 663917001776 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 663917001777 dimer interface [polypeptide binding]; other site 663917001778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917001779 catalytic residue [active] 663917001780 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 663917001781 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 663917001782 Ligand Binding Site [chemical binding]; other site 663917001783 GAF domain; Region: GAF; pfam01590 663917001784 PAS fold; Region: PAS_4; pfam08448 663917001785 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 663917001786 putative active site [active] 663917001787 heme pocket [chemical binding]; other site 663917001788 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917001789 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917001790 metal binding site [ion binding]; metal-binding site 663917001791 active site 663917001792 I-site; other site 663917001793 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 663917001794 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 663917001795 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 663917001796 putative dimer interface [polypeptide binding]; other site 663917001797 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 663917001798 DNA polymerase I; Provisional; Region: PRK05755 663917001799 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 663917001800 active site 663917001801 metal binding site 1 [ion binding]; metal-binding site 663917001802 putative 5' ssDNA interaction site; other site 663917001803 metal binding site 3; metal-binding site 663917001804 metal binding site 2 [ion binding]; metal-binding site 663917001805 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 663917001806 putative DNA binding site [nucleotide binding]; other site 663917001807 putative metal binding site [ion binding]; other site 663917001808 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 663917001809 active site 663917001810 catalytic site [active] 663917001811 substrate binding site [chemical binding]; other site 663917001812 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 663917001813 active site 663917001814 DNA binding site [nucleotide binding] 663917001815 catalytic site [active] 663917001816 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917001817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917001818 metal binding site [ion binding]; metal-binding site 663917001819 active site 663917001820 I-site; other site 663917001821 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 663917001822 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 663917001823 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 663917001824 S-adenosylmethionine binding site [chemical binding]; other site 663917001825 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 663917001826 EamA-like transporter family; Region: EamA; pfam00892 663917001827 RF-1 domain; Region: RF-1; pfam00472 663917001828 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 663917001829 MutS domain III; Region: MutS_III; pfam05192 663917001830 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 663917001831 Walker A/P-loop; other site 663917001832 ATP binding site [chemical binding]; other site 663917001833 Q-loop/lid; other site 663917001834 ABC transporter signature motif; other site 663917001835 Walker B; other site 663917001836 D-loop; other site 663917001837 H-loop/switch region; other site 663917001838 Smr domain; Region: Smr; pfam01713 663917001839 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 663917001840 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 663917001841 B12 binding site [chemical binding]; other site 663917001842 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 663917001843 FeS/SAM binding site; other site 663917001844 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 663917001845 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 663917001846 S-adenosylmethionine binding site [chemical binding]; other site 663917001847 conserved nucleotide sequence; KN400_R0136 663917001848 putative transposase OrfB; Reviewed; Region: PHA02517 663917001849 HTH-like domain; Region: HTH_21; pfam13276 663917001850 Integrase core domain; Region: rve; pfam00665 663917001851 Integrase core domain; Region: rve_3; cl15866 663917001852 Restriction endonuclease; Region: Mrr_cat; pfam04471 663917001853 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 663917001854 conserved nucleotide sequence; KN400_R0137 663917001855 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 663917001856 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 663917001857 catalytic residues [active] 663917001858 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 663917001859 Isochorismatase family; Region: Isochorismatase; pfam00857 663917001860 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 663917001861 catalytic triad [active] 663917001862 conserved cis-peptide bond; other site 663917001863 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 663917001864 S-adenosylmethionine binding site [chemical binding]; other site 663917001865 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 663917001866 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; cd00209 663917001867 folate binding site [chemical binding]; other site 663917001868 NADP+ binding site [chemical binding]; other site 663917001869 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 663917001870 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 663917001871 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 663917001872 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 663917001873 putative NAD(P) binding site [chemical binding]; other site 663917001874 putative substrate binding site [chemical binding]; other site 663917001875 catalytic Zn binding site [ion binding]; other site 663917001876 structural Zn binding site [ion binding]; other site 663917001877 EamA-like transporter family; Region: EamA; pfam00892 663917001878 Carbon starvation protein CstA; Region: CstA; pfam02554 663917001879 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 663917001880 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 663917001881 binding surface 663917001882 TPR motif; other site 663917001883 TPR repeat; Region: TPR_11; pfam13414 663917001884 Recombination protein O N terminal; Region: RecO_N; pfam11967 663917001885 DNA repair protein RecO; Region: reco; TIGR00613 663917001886 Recombination protein O C terminal; Region: RecO_C; pfam02565 663917001887 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 663917001888 dimer interface [polypeptide binding]; other site 663917001889 motif 1; other site 663917001890 active site 663917001891 motif 2; other site 663917001892 motif 3; other site 663917001893 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 663917001894 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 663917001895 pyruvate phosphate dikinase; Provisional; Region: PRK09279 663917001896 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 663917001897 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 663917001898 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 663917001899 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 663917001900 DNA-binding site [nucleotide binding]; DNA binding site 663917001901 RNA-binding motif; other site 663917001902 conserved palindrome; KN400_R0138 663917001903 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917001904 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 663917001905 dimerization interface [polypeptide binding]; other site 663917001906 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917001907 dimer interface [polypeptide binding]; other site 663917001908 putative CheW interface [polypeptide binding]; other site 663917001909 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 663917001910 dimerization interface [polypeptide binding]; other site 663917001911 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917001912 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917001913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917001914 dimer interface [polypeptide binding]; other site 663917001915 putative CheW interface [polypeptide binding]; other site 663917001916 conserved nucleotide sequence; KN400_R0060 663917001917 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 663917001918 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 663917001919 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 663917001920 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 663917001921 FeS/SAM binding site; other site 663917001922 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 663917001923 thiamine phosphate binding site [chemical binding]; other site 663917001924 active site 663917001925 pyrophosphate binding site [ion binding]; other site 663917001926 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 663917001927 ThiS interaction site; other site 663917001928 putative active site [active] 663917001929 tetramer interface [polypeptide binding]; other site 663917001930 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 663917001931 thiS-thiF/thiG interaction site; other site 663917001932 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 663917001933 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 663917001934 dimerization interface [polypeptide binding]; other site 663917001935 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917001936 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917001937 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917001938 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917001939 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 663917001940 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917001941 heme-binding residues [chemical binding]; other site 663917001942 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917001943 Response regulator receiver domain; Region: Response_reg; pfam00072 663917001944 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 663917001945 active site 663917001946 phosphorylation site [posttranslational modification] 663917001947 intermolecular recognition site; other site 663917001948 dimerization interface [polypeptide binding]; other site 663917001949 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917001950 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 663917001951 active site 663917001952 phosphorylation site [posttranslational modification] 663917001953 intermolecular recognition site; other site 663917001954 dimerization interface [polypeptide binding]; other site 663917001955 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 663917001956 Walker A motif; other site 663917001957 ATP binding site [chemical binding]; other site 663917001958 Walker B motif; other site 663917001959 arginine finger; other site 663917001960 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 663917001961 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 663917001962 dimerization interface [polypeptide binding]; other site 663917001963 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 663917001964 dimer interface [polypeptide binding]; other site 663917001965 phosphorylation site [posttranslational modification] 663917001966 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 663917001967 ATP binding site [chemical binding]; other site 663917001968 Mg2+ binding site [ion binding]; other site 663917001969 G-X-G motif; other site 663917001970 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 663917001971 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 663917001972 active site 663917001973 catalytic site [active] 663917001974 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 663917001975 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 663917001976 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 663917001977 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 663917001978 thiamine phosphate binding site [chemical binding]; other site 663917001979 active site 663917001980 pyrophosphate binding site [ion binding]; other site 663917001981 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 663917001982 substrate binding site [chemical binding]; other site 663917001983 dimer interface [polypeptide binding]; other site 663917001984 ATP binding site [chemical binding]; other site 663917001985 alanine racemase; Reviewed; Region: alr; PRK00053 663917001986 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 663917001987 active site 663917001988 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 663917001989 dimer interface [polypeptide binding]; other site 663917001990 substrate binding site [chemical binding]; other site 663917001991 catalytic residues [active] 663917001992 selenophosphate synthetase; Provisional; Region: PRK00943 663917001993 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 663917001994 dimerization interface [polypeptide binding]; other site 663917001995 putative ATP binding site [chemical binding]; other site 663917001996 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 663917001997 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 663917001998 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 663917001999 purine monophosphate binding site [chemical binding]; other site 663917002000 dimer interface [polypeptide binding]; other site 663917002001 putative catalytic residues [active] 663917002002 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 663917002003 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 663917002004 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 663917002005 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 663917002006 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 663917002007 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 663917002008 AIR carboxylase; Region: AIRC; pfam00731 663917002009 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917002010 heme-binding residues [chemical binding]; other site 663917002011 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 663917002012 ResB-like family; Region: ResB; pfam05140 663917002013 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 663917002014 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917002015 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917002016 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917002017 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917002018 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917002019 Uncharacterized conserved protein [Function unknown]; Region: COG3391 663917002020 NHL repeat; Region: NHL; pfam01436 663917002021 conserved nucleotide sequence; KN400_R0139 663917002022 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 663917002023 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 663917002024 active site 663917002025 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 663917002026 TPR motif; other site 663917002027 binding surface 663917002028 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 663917002029 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 663917002030 Ligand binding site; other site 663917002031 Putative Catalytic site; other site 663917002032 DXD motif; other site 663917002033 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 663917002034 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; cl17220 663917002035 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 663917002036 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 663917002037 NADP-binding site; other site 663917002038 homotetramer interface [polypeptide binding]; other site 663917002039 substrate binding site [chemical binding]; other site 663917002040 homodimer interface [polypeptide binding]; other site 663917002041 active site 663917002042 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 663917002043 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 663917002044 NADP binding site [chemical binding]; other site 663917002045 active site 663917002046 putative substrate binding site [chemical binding]; other site 663917002047 Methyltransferase domain; Region: Methyltransf_31; pfam13847 663917002048 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 663917002049 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 663917002050 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 663917002051 Methyltransferase domain; Region: Methyltransf_23; pfam13489 663917002052 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 663917002053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917002054 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 663917002055 Probable Catalytic site; other site 663917002056 Methyltransferase domain; Region: Methyltransf_23; pfam13489 663917002057 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 663917002058 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 663917002059 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 663917002060 Ligand binding site; other site 663917002061 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917002062 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 663917002063 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 663917002064 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 663917002065 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 663917002066 S-adenosylmethionine binding site [chemical binding]; other site 663917002067 Protein of unknown function (DUF721); Region: DUF721; pfam05258 663917002068 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 663917002069 signal recognition particle protein; Provisional; Region: PRK10867 663917002070 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 663917002071 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 663917002072 P loop; other site 663917002073 GTP binding site [chemical binding]; other site 663917002074 Signal peptide binding domain; Region: SRP_SPB; pfam02978 663917002075 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 663917002076 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 663917002077 KH domain; Region: KH_4; pfam13083 663917002078 G-X-X-G motif; other site 663917002079 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 663917002080 RimM N-terminal domain; Region: RimM; pfam01782 663917002081 PRC-barrel domain; Region: PRC; pfam05239 663917002082 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 663917002083 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 663917002084 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 663917002085 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 663917002086 RNA/DNA hybrid binding site [nucleotide binding]; other site 663917002087 active site 663917002088 hypothetical protein; Provisional; Region: PRK14675 663917002089 Predicted amidohydrolase [General function prediction only]; Region: COG0388 663917002090 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 663917002091 putative active site [active] 663917002092 catalytic triad [active] 663917002093 putative dimer interface [polypeptide binding]; other site 663917002094 NAD synthetase; Provisional; Region: PRK13980 663917002095 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 663917002096 homodimer interface [polypeptide binding]; other site 663917002097 NAD binding pocket [chemical binding]; other site 663917002098 ATP binding pocket [chemical binding]; other site 663917002099 Mg binding site [ion binding]; other site 663917002100 active-site loop [active] 663917002101 Predicted methyltransferases [General function prediction only]; Region: COG0313 663917002102 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 663917002103 putative SAM binding site [chemical binding]; other site 663917002104 putative homodimer interface [polypeptide binding]; other site 663917002105 trRNA_1; KN400_R0140 663917002106 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 663917002107 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 663917002108 ATP binding site [chemical binding]; other site 663917002109 substrate interface [chemical binding]; other site 663917002110 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 663917002111 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 663917002112 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 663917002113 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 663917002114 DNA binding residues [nucleotide binding] 663917002115 conserved nucleotide sequence; KN400_R0141 663917002116 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 663917002117 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 663917002118 homodimer interface [polypeptide binding]; other site 663917002119 substrate-cofactor binding pocket; other site 663917002120 catalytic residue [active] 663917002121 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 663917002122 Clp amino terminal domain; Region: Clp_N; pfam02861 663917002123 Clp amino terminal domain; Region: Clp_N; pfam02861 663917002124 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 663917002125 Walker A motif; other site 663917002126 ATP binding site [chemical binding]; other site 663917002127 Walker B motif; other site 663917002128 arginine finger; other site 663917002129 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 663917002130 Walker A motif; other site 663917002131 ATP binding site [chemical binding]; other site 663917002132 Walker B motif; other site 663917002133 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 663917002134 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 663917002135 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 663917002136 NodB motif; other site 663917002137 putative active site [active] 663917002138 putative catalytic site [active] 663917002139 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14614 663917002140 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 663917002141 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 663917002142 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 663917002143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917002144 active site 663917002145 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 663917002146 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 663917002147 5S rRNA interface [nucleotide binding]; other site 663917002148 CTC domain interface [polypeptide binding]; other site 663917002149 L16 interface [polypeptide binding]; other site 663917002150 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 663917002151 putative active site [active] 663917002152 catalytic residue [active] 663917002153 GTP-binding protein YchF; Reviewed; Region: PRK09601 663917002154 YchF GTPase; Region: YchF; cd01900 663917002155 G1 box; other site 663917002156 GTP/Mg2+ binding site [chemical binding]; other site 663917002157 Switch I region; other site 663917002158 G2 box; other site 663917002159 Switch II region; other site 663917002160 G3 box; other site 663917002161 G4 box; other site 663917002162 G5 box; other site 663917002163 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 663917002164 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 663917002165 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 663917002166 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 663917002167 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 663917002168 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 663917002169 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 663917002170 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 663917002171 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 663917002172 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 663917002173 RNA binding surface [nucleotide binding]; other site 663917002174 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 663917002175 active site 663917002176 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 663917002177 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 663917002178 hybrid cluster protein; Provisional; Region: PRK05290 663917002179 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 663917002180 ACS interaction site; other site 663917002181 CODH interaction site; other site 663917002182 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 663917002183 hybrid metal cluster; other site 663917002184 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 663917002185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917002186 FtsX-like permease family; Region: FtsX; pfam02687 663917002187 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917002188 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917002189 Walker A/P-loop; other site 663917002190 ATP binding site [chemical binding]; other site 663917002191 Q-loop/lid; other site 663917002192 ABC transporter signature motif; other site 663917002193 Walker B; other site 663917002194 D-loop; other site 663917002195 H-loop/switch region; other site 663917002196 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 663917002197 S-adenosylmethionine binding site [chemical binding]; other site 663917002198 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 663917002199 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 663917002200 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 663917002201 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 663917002202 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 663917002203 PAS fold; Region: PAS_4; pfam08448 663917002204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 663917002205 Histidine kinase; Region: HisKA_3; pfam07730 663917002206 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 663917002207 ATP binding site [chemical binding]; other site 663917002208 Mg2+ binding site [ion binding]; other site 663917002209 G-X-G motif; other site 663917002210 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 663917002211 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 663917002212 active site 663917002213 phosphorylation site [posttranslational modification] 663917002214 intermolecular recognition site; other site 663917002215 dimerization interface [polypeptide binding]; other site 663917002216 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 663917002217 dimerization interface [polypeptide binding]; other site 663917002218 DNA binding residues [nucleotide binding] 663917002219 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917002220 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917002221 HAMP domain; Region: HAMP; pfam00672 663917002222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917002223 dimer interface [polypeptide binding]; other site 663917002224 putative CheW interface [polypeptide binding]; other site 663917002225 palindrome; KN400_R0142 663917002226 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 663917002227 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 663917002228 FeS/SAM binding site; other site 663917002229 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 663917002230 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 663917002231 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 663917002232 TPP-binding site; other site 663917002233 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 663917002234 PYR/PP interface [polypeptide binding]; other site 663917002235 dimer interface [polypeptide binding]; other site 663917002236 TPP binding site [chemical binding]; other site 663917002237 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917002238 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 663917002239 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 663917002240 putative NADP binding site [chemical binding]; other site 663917002241 putative substrate binding site [chemical binding]; other site 663917002242 active site 663917002243 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 663917002244 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 663917002245 Active site cavity [active] 663917002246 catalytic acid [active] 663917002247 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 663917002248 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 663917002249 S-adenosylmethionine binding site [chemical binding]; other site 663917002250 translation initiation factor Sui1; Validated; Region: PRK06824 663917002251 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 663917002252 putative rRNA binding site [nucleotide binding]; other site 663917002253 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 663917002254 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 663917002255 substrate binding site [chemical binding]; other site 663917002256 ATP binding site [chemical binding]; other site 663917002257 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 663917002258 PAS fold; Region: PAS_3; pfam08447 663917002259 putative active site [active] 663917002260 heme pocket [chemical binding]; other site 663917002261 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 663917002262 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 663917002263 putative active site [active] 663917002264 heme pocket [chemical binding]; other site 663917002265 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 663917002266 putative active site [active] 663917002267 heme pocket [chemical binding]; other site 663917002268 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 663917002269 dimer interface [polypeptide binding]; other site 663917002270 phosphorylation site [posttranslational modification] 663917002271 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 663917002272 ATP binding site [chemical binding]; other site 663917002273 Mg2+ binding site [ion binding]; other site 663917002274 G-X-G motif; other site 663917002275 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 663917002276 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 663917002277 active site 663917002278 motif I; other site 663917002279 motif II; other site 663917002280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 663917002281 oxidoreductase; Validated; Region: PRK05717 663917002282 NAD(P) binding site [chemical binding]; other site 663917002283 active site 663917002284 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 663917002285 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 663917002286 ligand binding site; other site 663917002287 HEAT repeats; Region: HEAT_2; pfam13646 663917002288 HEAT repeats; Region: HEAT_2; pfam13646 663917002289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917002290 Zn2+ binding site [ion binding]; other site 663917002291 Mg2+ binding site [ion binding]; other site 663917002292 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917002293 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 663917002294 active site 663917002295 phosphorylation site [posttranslational modification] 663917002296 intermolecular recognition site; other site 663917002297 dimerization interface [polypeptide binding]; other site 663917002298 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 663917002299 PAS fold; Region: PAS_3; pfam08447 663917002300 putative active site [active] 663917002301 heme pocket [chemical binding]; other site 663917002302 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 663917002303 PAS domain; Region: PAS_9; pfam13426 663917002304 putative active site [active] 663917002305 heme pocket [chemical binding]; other site 663917002306 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 663917002307 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 663917002308 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917002309 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917002310 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917002311 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 663917002312 ResB-like family; Region: ResB; pfam05140 663917002313 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 663917002314 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 663917002315 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 663917002316 D-galactonate transporter; Region: 2A0114; TIGR00893 663917002317 putative substrate translocation pore; other site 663917002318 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 663917002319 conserved nucleotide sequence; KN400_R0143 663917002320 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 663917002321 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 663917002322 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 663917002323 Bacterial SH3 domain; Region: SH3_3; pfam08239 663917002324 Caspase domain; Region: Peptidase_C14; pfam00656 663917002325 PAS domain S-box; Region: sensory_box; TIGR00229 663917002326 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 663917002327 putative active site [active] 663917002328 heme pocket [chemical binding]; other site 663917002329 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 663917002330 dimer interface [polypeptide binding]; other site 663917002331 phosphorylation site [posttranslational modification] 663917002332 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 663917002333 ATP binding site [chemical binding]; other site 663917002334 Mg2+ binding site [ion binding]; other site 663917002335 G-X-G motif; other site 663917002336 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002337 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 663917002338 active site 663917002339 phosphorylation site [posttranslational modification] 663917002340 intermolecular recognition site; other site 663917002341 dimerization interface [polypeptide binding]; other site 663917002342 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 663917002343 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 663917002344 non-heme iron binding site [ion binding]; other site 663917002345 tetramer interface [polypeptide binding]; other site 663917002346 RNA polymerase factor sigma-70; Validated; Region: PRK09047 663917002347 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 663917002348 DNA binding residues [nucleotide binding] 663917002349 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 663917002350 Flagellin N-methylase; Region: FliB; pfam03692 663917002351 CheD chemotactic sensory transduction; Region: CheD; cl00810 663917002352 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 663917002353 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 663917002354 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 663917002355 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 663917002356 4Fe-4S binding domain; Region: Fer4_5; pfam12801 663917002357 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 663917002358 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 663917002359 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 663917002360 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 663917002361 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 663917002362 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 663917002363 rod shape-determining protein MreB; Provisional; Region: PRK13930 663917002364 MreB and similar proteins; Region: MreB_like; cd10225 663917002365 nucleotide binding site [chemical binding]; other site 663917002366 Mg binding site [ion binding]; other site 663917002367 putative protofilament interaction site [polypeptide binding]; other site 663917002368 RodZ interaction site [polypeptide binding]; other site 663917002369 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917002370 Helix-turn-helix domain; Region: HTH_17; pfam12728 663917002371 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 663917002372 active site 663917002373 phosphorylation site [posttranslational modification] 663917002374 PemK-like protein; Region: PemK; pfam02452 663917002375 hydrogenase 4 subunit B; Validated; Region: PRK06521 663917002376 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917002377 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 663917002378 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 663917002379 hydrogenase 4 subunit F; Validated; Region: PRK06458 663917002380 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917002381 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 663917002382 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 663917002383 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 663917002384 conserved nucleotide sequence; KN400_R0063 663917002385 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 663917002386 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 663917002387 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 663917002388 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 663917002389 dimerization interface [polypeptide binding]; other site 663917002390 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917002391 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917002392 dimer interface [polypeptide binding]; other site 663917002393 putative CheW interface [polypeptide binding]; other site 663917002394 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 663917002395 H+ Antiporter protein; Region: 2A0121; TIGR00900 663917002396 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 663917002397 putative substrate translocation pore; other site 663917002398 cyanobacterial long protein repeat; Region: swm_rep_I; TIGR02059 663917002399 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 663917002400 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 663917002401 Interdomain contacts; other site 663917002402 Right handed beta helix region; Region: Beta_helix; pfam13229 663917002403 palindrome; KN400_R0144 663917002404 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917002405 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 663917002406 dimerization interface [polypeptide binding]; other site 663917002407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917002408 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917002409 dimer interface [polypeptide binding]; other site 663917002410 putative CheW interface [polypeptide binding]; other site 663917002411 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 663917002412 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 663917002413 Protein of unknown function (DUF554); Region: DUF554; pfam04474 663917002414 conserved nucleotide sequence; KN400_R0145 663917002415 putative transposase OrfB; Reviewed; Region: PHA02517 663917002416 HTH-like domain; Region: HTH_21; pfam13276 663917002417 Integrase core domain; Region: rve; pfam00665 663917002418 Integrase core domain; Region: rve_3; cl15866 663917002419 conserved nucleotide sequence; KN400_R0290 663917002420 conserved nucleotide sequence; KN400_R0146 663917002421 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 663917002422 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 663917002423 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 663917002424 conserved nucleotide sequence; KN400_R0147 663917002425 conserved nucleotide sequence; KN400_R0148 663917002426 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 663917002427 dimerization interface [polypeptide binding]; other site 663917002428 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917002429 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917002430 dimer interface [polypeptide binding]; other site 663917002431 putative CheW interface [polypeptide binding]; other site 663917002432 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 663917002433 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 663917002434 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 663917002435 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 663917002436 Predicted permeases [General function prediction only]; Region: RarD; COG2962 663917002437 EamA-like transporter family; Region: EamA; cl17759 663917002438 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 663917002439 conserved nucleotide sequence; KN400_R0149 663917002440 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917002441 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917002442 conserved nucleotide sequence; KN400_R0150 663917002443 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 663917002444 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 663917002445 NADP binding site [chemical binding]; other site 663917002446 dimer interface [polypeptide binding]; other site 663917002447 conserved nucleotide sequence; KN400_R0151 663917002448 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 663917002449 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 663917002450 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 663917002451 Major Facilitator Superfamily; Region: MFS_1; pfam07690 663917002452 putative substrate translocation pore; other site 663917002453 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 663917002454 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917002455 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 663917002456 dimerization interface [polypeptide binding]; other site 663917002457 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 663917002458 dimer interface [polypeptide binding]; other site 663917002459 phosphorylation site [posttranslational modification] 663917002460 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 663917002461 ATP binding site [chemical binding]; other site 663917002462 Mg2+ binding site [ion binding]; other site 663917002463 G-X-G motif; other site 663917002464 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917002465 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 663917002466 active site 663917002467 phosphorylation site [posttranslational modification] 663917002468 intermolecular recognition site; other site 663917002469 dimerization interface [polypeptide binding]; other site 663917002470 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 663917002471 Walker A motif; other site 663917002472 ATP binding site [chemical binding]; other site 663917002473 Walker B motif; other site 663917002474 arginine finger; other site 663917002475 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917002476 conserved nucleotide sequence; KN400_R0152 663917002477 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 663917002478 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 663917002479 [4Fe-4S] binding site [ion binding]; other site 663917002480 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 663917002481 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 663917002482 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 663917002483 molybdopterin cofactor binding site; other site 663917002484 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 663917002485 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 663917002486 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 663917002487 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 663917002488 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 663917002489 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 663917002490 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 663917002491 GTP binding site; other site 663917002492 twin arginine translocase protein A; Provisional; Region: tatA; PRK14860 663917002493 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 663917002494 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 663917002495 4Fe-4S binding domain; Region: Fer4; cl02805 663917002496 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 663917002497 hydrogenase 2 large subunit; Provisional; Region: PRK10467 663917002498 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 663917002499 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 663917002500 putative substrate-binding site; other site 663917002501 nickel binding site [ion binding]; other site 663917002502 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 663917002503 palindrome; KN400_R0153 663917002504 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002505 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 663917002506 active site 663917002507 phosphorylation site [posttranslational modification] 663917002508 intermolecular recognition site; other site 663917002509 dimerization interface [polypeptide binding]; other site 663917002510 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 663917002511 Flagellin N-methylase; Region: FliB; cl00497 663917002512 NRDE protein; Region: NRDE; pfam05742 663917002513 NosL; Region: NosL; cl01769 663917002514 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 663917002515 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917002516 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 663917002517 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 663917002518 active site residue [active] 663917002519 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 663917002520 active site residue [active] 663917002521 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 663917002522 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 663917002523 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 663917002524 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 663917002525 Walker A/P-loop; other site 663917002526 ATP binding site [chemical binding]; other site 663917002527 Q-loop/lid; other site 663917002528 ABC transporter signature motif; other site 663917002529 Walker B; other site 663917002530 D-loop; other site 663917002531 H-loop/switch region; other site 663917002532 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 663917002533 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 663917002534 dimer interface [polypeptide binding]; other site 663917002535 conserved gate region; other site 663917002536 putative PBP binding loops; other site 663917002537 ABC-ATPase subunit interface; other site 663917002538 conserved nucleotide sequence; KN400_R0064 663917002539 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 663917002540 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917002541 substrate binding pocket [chemical binding]; other site 663917002542 membrane-bound complex binding site; other site 663917002543 hinge residues; other site 663917002544 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 663917002545 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 663917002546 short chain dehydrogenase; Provisional; Region: PRK07041 663917002547 putative NAD(P) binding site [chemical binding]; other site 663917002548 homodimer interface [polypeptide binding]; other site 663917002549 phosphoenolpyruvate synthase; Validated; Region: PRK06464 663917002550 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 663917002551 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 663917002552 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 663917002553 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 663917002554 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 663917002555 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 663917002556 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 663917002557 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 663917002558 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 663917002559 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 663917002560 ligand binding site [chemical binding]; other site 663917002561 flexible hinge region; other site 663917002562 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917002563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917002564 metal binding site [ion binding]; metal-binding site 663917002565 active site 663917002566 I-site; other site 663917002567 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_cladeD; cd03379 663917002568 active site clefts [active] 663917002569 zinc binding site [ion binding]; other site 663917002570 dimer interface [polypeptide binding]; other site 663917002571 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 663917002572 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917002573 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 663917002574 ligand binding site [chemical binding]; other site 663917002575 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917002576 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 663917002577 ligand binding site [chemical binding]; other site 663917002578 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917002579 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 663917002580 active site 663917002581 phosphorylation site [posttranslational modification] 663917002582 intermolecular recognition site; other site 663917002583 dimerization interface [polypeptide binding]; other site 663917002584 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 663917002585 Walker A motif; other site 663917002586 ATP binding site [chemical binding]; other site 663917002587 Walker B motif; other site 663917002588 arginine finger; other site 663917002589 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917002590 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 663917002591 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 663917002592 dimerization interface [polypeptide binding]; other site 663917002593 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 663917002594 putative active site [active] 663917002595 heme pocket [chemical binding]; other site 663917002596 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 663917002597 dimer interface [polypeptide binding]; other site 663917002598 phosphorylation site [posttranslational modification] 663917002599 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 663917002600 ATP binding site [chemical binding]; other site 663917002601 Mg2+ binding site [ion binding]; other site 663917002602 G-X-G motif; other site 663917002603 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 663917002604 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 663917002605 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 663917002606 mce related protein; Region: MCE; pfam02470 663917002607 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 663917002608 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 663917002609 Walker A/P-loop; other site 663917002610 ATP binding site [chemical binding]; other site 663917002611 Q-loop/lid; other site 663917002612 ABC transporter signature motif; other site 663917002613 Walker B; other site 663917002614 D-loop; other site 663917002615 H-loop/switch region; other site 663917002616 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 663917002617 Permease; Region: Permease; pfam02405 663917002618 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 663917002619 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 663917002620 tetrameric interface [polypeptide binding]; other site 663917002621 activator binding site; other site 663917002622 NADP binding site [chemical binding]; other site 663917002623 substrate binding site [chemical binding]; other site 663917002624 catalytic residues [active] 663917002625 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 663917002626 NADPH bind site [chemical binding]; other site 663917002627 putative FMN binding site [chemical binding]; other site 663917002628 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 663917002629 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 663917002630 tandem repeat interface [polypeptide binding]; other site 663917002631 oligomer interface [polypeptide binding]; other site 663917002632 active site residues [active] 663917002633 Cache domain; Region: Cache_1; pfam02743 663917002634 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 663917002635 dimerization interface [polypeptide binding]; other site 663917002636 PAS domain S-box; Region: sensory_box; TIGR00229 663917002637 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 663917002638 putative active site [active] 663917002639 heme pocket [chemical binding]; other site 663917002640 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 663917002641 dimer interface [polypeptide binding]; other site 663917002642 phosphorylation site [posttranslational modification] 663917002643 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 663917002644 ATP binding site [chemical binding]; other site 663917002645 Mg2+ binding site [ion binding]; other site 663917002646 G-X-G motif; other site 663917002647 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 663917002648 SseB protein; Region: SseB; cl06279 663917002649 Pirin-related protein [General function prediction only]; Region: COG1741 663917002650 Pirin; Region: Pirin; pfam02678 663917002651 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 663917002652 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 663917002653 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917002654 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 663917002655 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917002656 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 663917002657 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 663917002658 Nitrogen regulatory protein P-II; Region: P-II; smart00938 663917002659 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 663917002660 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 663917002661 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 663917002662 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002663 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 663917002664 active site 663917002665 phosphorylation site [posttranslational modification] 663917002666 intermolecular recognition site; other site 663917002667 dimerization interface [polypeptide binding]; other site 663917002668 conserved nucleotide sequence; KN400_R0154 663917002669 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917002670 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 663917002671 active site 663917002672 phosphorylation site [posttranslational modification] 663917002673 intermolecular recognition site; other site 663917002674 dimerization interface [polypeptide binding]; other site 663917002675 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 663917002676 Walker A motif; other site 663917002677 ATP binding site [chemical binding]; other site 663917002678 Walker B motif; other site 663917002679 arginine finger; other site 663917002680 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917002681 GAF domain; Region: GAF; cl17456 663917002682 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917002683 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 663917002684 putative active site [active] 663917002685 heme pocket [chemical binding]; other site 663917002686 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 663917002687 dimer interface [polypeptide binding]; other site 663917002688 phosphorylation site [posttranslational modification] 663917002689 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 663917002690 ATP binding site [chemical binding]; other site 663917002691 Mg2+ binding site [ion binding]; other site 663917002692 G-X-G motif; other site 663917002693 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917002694 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 663917002695 active site 663917002696 phosphorylation site [posttranslational modification] 663917002697 intermolecular recognition site; other site 663917002698 dimerization interface [polypeptide binding]; other site 663917002699 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 663917002700 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917002701 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 663917002702 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 663917002703 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 663917002704 transmembrane helices; other site 663917002705 TrkA-C domain; Region: TrkA_C; pfam02080 663917002706 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 663917002707 TrkA-C domain; Region: TrkA_C; pfam02080 663917002708 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 663917002709 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 663917002710 iron-sulfur cluster [ion binding]; other site 663917002711 [2Fe-2S] cluster binding site [ion binding]; other site 663917002712 aconitate hydratase; Validated; Region: PRK09277 663917002713 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 663917002714 substrate binding site [chemical binding]; other site 663917002715 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 663917002716 ligand binding site [chemical binding]; other site 663917002717 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 663917002718 substrate binding site [chemical binding]; other site 663917002719 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 663917002720 Rubredoxin; Region: Rubredoxin; pfam00301 663917002721 iron binding site [ion binding]; other site 663917002722 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 663917002723 conserved nucleotide sequence; KN400_R0155 663917002724 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 663917002725 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 663917002726 Hemerythrin-like domain; Region: Hr-like; cd12108 663917002727 Fe binding site [ion binding]; other site 663917002728 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 663917002729 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 663917002730 dimerization domain [polypeptide binding]; other site 663917002731 dimer interface [polypeptide binding]; other site 663917002732 catalytic residues [active] 663917002733 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 663917002734 Domain of unknown function DUF21; Region: DUF21; pfam01595 663917002735 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 663917002736 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 663917002737 Transporter associated domain; Region: CorC_HlyC; smart01091 663917002738 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 663917002739 Domain of unknown function DUF20; Region: UPF0118; pfam01594 663917002740 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 663917002741 Peptidase family M48; Region: Peptidase_M48; cl12018 663917002742 conserved nucleotide sequence; KN400_R0065 663917002743 Predicted membrane protein [Function unknown]; Region: COG2119 663917002744 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 663917002745 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 663917002746 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 663917002747 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 663917002748 active site 663917002749 tetramer interface; other site 663917002750 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 663917002751 FAD binding site [chemical binding]; other site 663917002752 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 663917002753 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 663917002754 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 663917002755 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 663917002756 homodimer interface [polypeptide binding]; other site 663917002757 NADP binding site [chemical binding]; other site 663917002758 substrate binding site [chemical binding]; other site 663917002759 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 663917002760 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 663917002761 DivIVA protein; Region: DivIVA; pfam05103 663917002762 DivIVA domain; Region: DivI1A_domain; TIGR03544 663917002763 YGGT family; Region: YGGT; pfam02325 663917002764 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 663917002765 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 663917002766 S-adenosylmethionine binding site [chemical binding]; other site 663917002767 Uncharacterized conserved protein [Function unknown]; Region: COG1624 663917002768 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 663917002769 YbbR-like protein; Region: YbbR; pfam07949 663917002770 YbbR-like protein; Region: YbbR; pfam07949 663917002771 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917002772 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 663917002773 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917002774 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 663917002775 NlpC/P60 family; Region: NLPC_P60; pfam00877 663917002776 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 663917002777 active site 663917002778 8-oxo-dGMP binding site [chemical binding]; other site 663917002779 nudix motif; other site 663917002780 metal binding site [ion binding]; metal-binding site 663917002781 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 663917002782 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917002783 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 663917002784 FeS/SAM binding site; other site 663917002785 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 663917002786 TPR motif; other site 663917002787 TPR repeat; Region: TPR_11; pfam13414 663917002788 binding surface 663917002789 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 663917002790 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 663917002791 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 663917002792 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 663917002793 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 663917002794 conserved nucleotide sequence; KN400_R0156 663917002795 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002796 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 663917002797 active site 663917002798 phosphorylation site [posttranslational modification] 663917002799 intermolecular recognition site; other site 663917002800 dimerization interface [polypeptide binding]; other site 663917002801 PilZ domain; Region: PilZ; pfam07238 663917002802 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 663917002803 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 663917002804 Probable Catalytic site; other site 663917002805 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 663917002806 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002807 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 663917002808 active site 663917002809 phosphorylation site [posttranslational modification] 663917002810 intermolecular recognition site; other site 663917002811 dimerization interface [polypeptide binding]; other site 663917002812 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 663917002813 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 663917002814 putative [4Fe-4S] binding site [ion binding]; other site 663917002815 putative molybdopterin cofactor binding site [chemical binding]; other site 663917002816 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 663917002817 putative molybdopterin cofactor binding site; other site 663917002818 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 663917002819 dimerization interface [polypeptide binding]; other site 663917002820 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 663917002821 dimer interface [polypeptide binding]; other site 663917002822 phosphorylation site [posttranslational modification] 663917002823 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 663917002824 ATP binding site [chemical binding]; other site 663917002825 Mg2+ binding site [ion binding]; other site 663917002826 G-X-G motif; other site 663917002827 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 663917002828 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 663917002829 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 663917002830 N-terminal plug; other site 663917002831 ligand-binding site [chemical binding]; other site 663917002832 putative radical SAM-modified peptide; Region: geopeptide; TIGR04229 663917002833 palindrome; KN400_R0157 663917002834 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 663917002835 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 663917002836 FeS/SAM binding site; other site 663917002837 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 663917002838 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 663917002839 AAA domain; Region: AAA_26; pfam13500 663917002840 DRTGG domain; Region: DRTGG; pfam07085 663917002841 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 663917002842 Radical SAM superfamily; Region: Radical_SAM; pfam04055 663917002843 FeS/SAM binding site; other site 663917002844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 663917002845 acylphosphatase; Provisional; Region: PRK14438 663917002846 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 663917002847 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 663917002848 nucleotide binding pocket [chemical binding]; other site 663917002849 K-X-D-G motif; other site 663917002850 catalytic site [active] 663917002851 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 663917002852 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 663917002853 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 663917002854 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 663917002855 Dimer interface [polypeptide binding]; other site 663917002856 BRCT sequence motif; other site 663917002857 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 663917002858 active site 663917002859 catalytic residues [active] 663917002860 Domain of unknown function DUF11; Region: DUF11; pfam01345 663917002861 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 663917002862 Part of AAA domain; Region: AAA_19; pfam13245 663917002863 Family description; Region: UvrD_C_2; pfam13538 663917002864 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 663917002865 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 663917002866 dimer interface [polypeptide binding]; other site 663917002867 decamer (pentamer of dimers) interface [polypeptide binding]; other site 663917002868 catalytic triad [active] 663917002869 peroxidatic and resolving cysteines [active] 663917002870 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 663917002871 substrate binding site [chemical binding]; other site 663917002872 Sensory domain found in PocR; Region: PocR; pfam10114 663917002873 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917002874 GAF domain; Region: GAF; pfam01590 663917002875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917002876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917002877 metal binding site [ion binding]; metal-binding site 663917002878 active site 663917002879 I-site; other site 663917002880 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 663917002881 Uncharacterized conserved protein [Function unknown]; Region: COG1262 663917002882 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 663917002883 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 663917002884 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 663917002885 ATP binding site [chemical binding]; other site 663917002886 putative Mg++ binding site [ion binding]; other site 663917002887 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 663917002888 nucleotide binding region [chemical binding]; other site 663917002889 ATP-binding site [chemical binding]; other site 663917002890 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 663917002891 HRDC domain; Region: HRDC; pfam00570 663917002892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 663917002893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 663917002894 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 663917002895 S-adenosylmethionine binding site [chemical binding]; other site 663917002896 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002897 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 663917002898 active site 663917002899 phosphorylation site [posttranslational modification] 663917002900 intermolecular recognition site; other site 663917002901 dimerization interface [polypeptide binding]; other site 663917002902 Response regulator receiver domain; Region: Response_reg; pfam00072 663917002903 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 663917002904 active site 663917002905 phosphorylation site [posttranslational modification] 663917002906 intermolecular recognition site; other site 663917002907 dimerization interface [polypeptide binding]; other site 663917002908 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 663917002909 dimer interface [polypeptide binding]; other site 663917002910 phosphorylation site [posttranslational modification] 663917002911 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 663917002912 ATP binding site [chemical binding]; other site 663917002913 Mg2+ binding site [ion binding]; other site 663917002914 G-X-G motif; other site 663917002915 HDOD domain; Region: HDOD; pfam08668 663917002916 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917002917 Zn2+ binding site [ion binding]; other site 663917002918 Mg2+ binding site [ion binding]; other site 663917002919 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 663917002920 DNA-binding site [nucleotide binding]; DNA binding site 663917002921 RNA-binding motif; other site 663917002922 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 663917002923 hypothetical protein; Provisional; Region: PRK08328 663917002924 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 663917002925 ATP binding site [chemical binding]; other site 663917002926 substrate interface [chemical binding]; other site 663917002927 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 663917002928 MoaE interaction surface [polypeptide binding]; other site 663917002929 MoeB interaction surface [polypeptide binding]; other site 663917002930 thiocarboxylated glycine; other site 663917002931 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 663917002932 mercuric reductase; Validated; Region: PRK06370 663917002933 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 663917002934 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 663917002935 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 663917002936 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 663917002937 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917002938 ABC transporter ATPase component; Reviewed; Region: PRK11147 663917002939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917002940 Walker A/P-loop; other site 663917002941 ATP binding site [chemical binding]; other site 663917002942 Q-loop/lid; other site 663917002943 ABC transporter signature motif; other site 663917002944 Walker B; other site 663917002945 D-loop; other site 663917002946 H-loop/switch region; other site 663917002947 ABC transporter; Region: ABC_tran_2; pfam12848 663917002948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917002949 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 663917002950 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 663917002951 ATP binding site [chemical binding]; other site 663917002952 Mg++ binding site [ion binding]; other site 663917002953 motif III; other site 663917002954 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 663917002955 nucleotide binding region [chemical binding]; other site 663917002956 ATP-binding site [chemical binding]; other site 663917002957 HAMP domain; Region: HAMP; pfam00672 663917002958 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917002959 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917002960 dimer interface [polypeptide binding]; other site 663917002961 putative CheW interface [polypeptide binding]; other site 663917002962 Protein of unknown function (DUF454); Region: DUF454; pfam04304 663917002963 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 663917002964 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 663917002965 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917002966 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917002967 ABC transporter; Region: ABC_tran_2; pfam12848 663917002968 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917002969 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 663917002970 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 663917002971 Walker A motif; other site 663917002972 ATP binding site [chemical binding]; other site 663917002973 Walker B motif; other site 663917002974 arginine finger; other site 663917002975 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 663917002976 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 663917002977 Permease; Region: Permease; pfam02405 663917002978 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 663917002979 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 663917002980 Walker A/P-loop; other site 663917002981 ATP binding site [chemical binding]; other site 663917002982 Q-loop/lid; other site 663917002983 ABC transporter signature motif; other site 663917002984 Walker B; other site 663917002985 D-loop; other site 663917002986 H-loop/switch region; other site 663917002987 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 663917002988 mce related protein; Region: MCE; pfam02470 663917002989 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 663917002990 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 663917002991 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 663917002992 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 663917002993 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 663917002994 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 663917002995 palindrome; KN400_R0158 663917002996 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 663917002997 active site residue [active] 663917002998 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 663917002999 active site residue [active] 663917003000 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 663917003001 active site residue [active] 663917003002 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 663917003003 active site residue [active] 663917003004 YceI-like domain; Region: YceI; pfam04264 663917003005 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 663917003006 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917003007 active site 663917003008 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917003009 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 663917003010 dimerization interface [polypeptide binding]; other site 663917003011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003012 dimer interface [polypeptide binding]; other site 663917003013 putative CheW interface [polypeptide binding]; other site 663917003014 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 663917003015 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 663917003016 catalytic triad [active] 663917003017 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 663917003018 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 663917003019 active site 663917003020 catalytic residues [active] 663917003021 metal binding site [ion binding]; metal-binding site 663917003022 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 663917003023 Nitrogen regulatory protein P-II; Region: P-II; smart00938 663917003024 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 663917003025 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 663917003026 dimer interface [polypeptide binding]; other site 663917003027 phosphorylation site [posttranslational modification] 663917003028 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 663917003029 ATP binding site [chemical binding]; other site 663917003030 Mg2+ binding site [ion binding]; other site 663917003031 G-X-G motif; other site 663917003032 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 663917003033 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 663917003034 active site 663917003035 dimerization interface [polypeptide binding]; other site 663917003036 PilZ domain; Region: PilZ; pfam07238 663917003037 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 663917003038 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 663917003039 homodimer interface [polypeptide binding]; other site 663917003040 substrate-cofactor binding pocket; other site 663917003041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917003042 catalytic residue [active] 663917003043 cystathionine beta-lyase; Provisional; Region: PRK08064 663917003044 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 663917003045 homodimer interface [polypeptide binding]; other site 663917003046 substrate-cofactor binding pocket; other site 663917003047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917003048 catalytic residue [active] 663917003049 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 663917003050 dimerization interface [polypeptide binding]; other site 663917003051 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 663917003052 PAS domain; Region: PAS_9; pfam13426 663917003053 putative active site [active] 663917003054 heme pocket [chemical binding]; other site 663917003055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917003056 metal binding site [ion binding]; metal-binding site 663917003057 active site 663917003058 I-site; other site 663917003059 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 663917003060 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917003061 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917003062 Walker A/P-loop; other site 663917003063 ATP binding site [chemical binding]; other site 663917003064 Q-loop/lid; other site 663917003065 ABC transporter signature motif; other site 663917003066 Walker B; other site 663917003067 D-loop; other site 663917003068 H-loop/switch region; other site 663917003069 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917003070 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 663917003071 FtsX-like permease family; Region: FtsX; pfam02687 663917003072 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 663917003073 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917003074 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917003075 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 663917003076 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917003077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917003078 metal binding site [ion binding]; metal-binding site 663917003079 active site 663917003080 I-site; other site 663917003081 conserved nucleotide sequence; KN400_R0159 663917003082 palindrome; KN400_R0160 663917003083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 663917003084 Bacterial dnaA protein helix-turn-helix domain; Region: Bac_DnaA_C; smart00760 663917003085 DnaA box-binding interface [nucleotide binding]; other site 663917003086 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 663917003087 ATP binding site [chemical binding]; other site 663917003088 Mg2+ binding site [ion binding]; other site 663917003089 G-X-G motif; other site 663917003090 conserved nucleotide sequence; KN400_R0161 663917003091 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 663917003092 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 663917003093 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917003094 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 663917003095 dimerization interface [polypeptide binding]; other site 663917003096 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 663917003097 dimer interface [polypeptide binding]; other site 663917003098 phosphorylation site [posttranslational modification] 663917003099 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 663917003100 ATP binding site [chemical binding]; other site 663917003101 Mg2+ binding site [ion binding]; other site 663917003102 G-X-G motif; other site 663917003103 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917003104 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 663917003105 active site 663917003106 phosphorylation site [posttranslational modification] 663917003107 intermolecular recognition site; other site 663917003108 dimerization interface [polypeptide binding]; other site 663917003109 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 663917003110 Walker A motif; other site 663917003111 ATP binding site [chemical binding]; other site 663917003112 Walker B motif; other site 663917003113 arginine finger; other site 663917003114 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 663917003115 conserved nucleotide sequence; KN400_R0162 663917003116 conserved nucleotide sequence; KN400_R0163 663917003117 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 663917003118 C-terminal peptidase (prc); Region: prc; TIGR00225 663917003119 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 663917003120 protein binding site [polypeptide binding]; other site 663917003121 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 663917003122 Catalytic dyad [active] 663917003123 palindrome; KN400_R0164 663917003124 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 663917003125 RF-1 domain; Region: RF-1; pfam00472 663917003126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917003127 ABC transporter signature motif; other site 663917003128 Walker B; other site 663917003129 D-loop; other site 663917003130 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 663917003131 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 663917003132 Walker A motif; other site 663917003133 ATP binding site [chemical binding]; other site 663917003134 Walker B motif; other site 663917003135 arginine finger; other site 663917003136 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 663917003137 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 663917003138 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 663917003139 conserved hypothetical phage tail region protein; Region: TIGR02241 663917003140 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 663917003141 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 663917003142 Phage protein D [General function prediction only]; Region: COG3500 663917003143 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 663917003144 conserved nucleotide sequence; KN400_R0067 663917003145 PAAR motif; Region: PAAR_motif; cl15808 663917003146 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 663917003147 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 663917003148 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 663917003149 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 663917003150 NHL repeat; Region: NHL; pfam01436 663917003151 phage tail protein domain; Region: tail_TIGR02242 663917003152 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 663917003153 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917003154 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 663917003155 putative ADP-binding pocket [chemical binding]; other site 663917003156 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 663917003157 CoenzymeA binding site [chemical binding]; other site 663917003158 subunit interaction site [polypeptide binding]; other site 663917003159 PHB binding site; other site 663917003160 fumarate hydratase; Provisional; Region: PRK15389 663917003161 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 663917003162 Fumarase C-terminus; Region: Fumerase_C; pfam05683 663917003163 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 663917003164 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 663917003165 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 663917003166 DNA binding site [nucleotide binding] 663917003167 catalytic residue [active] 663917003168 H2TH interface [polypeptide binding]; other site 663917003169 putative catalytic residues [active] 663917003170 turnover-facilitating residue; other site 663917003171 intercalation triad [nucleotide binding]; other site 663917003172 8OG recognition residue [nucleotide binding]; other site 663917003173 putative reading head residues; other site 663917003174 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 663917003175 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 663917003176 replicative DNA helicase; Region: DnaB; TIGR00665 663917003177 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 663917003178 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 663917003179 Walker A motif; other site 663917003180 ATP binding site [chemical binding]; other site 663917003181 Walker B motif; other site 663917003182 DNA binding loops [nucleotide binding] 663917003183 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 663917003184 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 663917003185 active site 663917003186 Isochorismatase family; Region: Isochorismatase; pfam00857 663917003187 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 663917003188 catalytic triad [active] 663917003189 dimer interface [polypeptide binding]; other site 663917003190 conserved cis-peptide bond; other site 663917003191 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917003192 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 663917003193 active site 663917003194 phosphorylation site [posttranslational modification] 663917003195 intermolecular recognition site; other site 663917003196 dimerization interface [polypeptide binding]; other site 663917003197 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 663917003198 Walker A motif; other site 663917003199 ATP binding site [chemical binding]; other site 663917003200 Walker B motif; other site 663917003201 arginine finger; other site 663917003202 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 663917003203 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 663917003204 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 663917003205 putative active site [active] 663917003206 heme pocket [chemical binding]; other site 663917003207 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 663917003208 phosphorylation site [posttranslational modification] 663917003209 dimer interface [polypeptide binding]; other site 663917003210 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 663917003211 ATP binding site [chemical binding]; other site 663917003212 Mg2+ binding site [ion binding]; other site 663917003213 G-X-G motif; other site 663917003214 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 663917003215 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 663917003216 FMN binding site [chemical binding]; other site 663917003217 active site 663917003218 catalytic residues [active] 663917003219 substrate binding site [chemical binding]; other site 663917003220 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917003221 GAF domain; Region: GAF_3; pfam13492 663917003222 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917003223 GAF domain; Region: GAF; pfam01590 663917003224 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 663917003225 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917003226 Zn2+ binding site [ion binding]; other site 663917003227 Mg2+ binding site [ion binding]; other site 663917003228 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 663917003229 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 663917003230 NAD binding site [chemical binding]; other site 663917003231 homotetramer interface [polypeptide binding]; other site 663917003232 homodimer interface [polypeptide binding]; other site 663917003233 substrate binding site [chemical binding]; other site 663917003234 active site 663917003235 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 663917003236 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 663917003237 HflX GTPase family; Region: HflX; cd01878 663917003238 G1 box; other site 663917003239 GTP/Mg2+ binding site [chemical binding]; other site 663917003240 Switch I region; other site 663917003241 G2 box; other site 663917003242 G3 box; other site 663917003243 Switch II region; other site 663917003244 G4 box; other site 663917003245 G5 box; other site 663917003246 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 663917003247 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 663917003248 N-acetyl-D-glucosamine binding site [chemical binding]; other site 663917003249 catalytic residue [active] 663917003250 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917003251 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 663917003252 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917003253 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 663917003254 binding surface 663917003255 TPR motif; other site 663917003256 Protein of unknown function (DUF401); Region: DUF401; cl00830 663917003257 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917003258 ligand binding site [chemical binding]; other site 663917003259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 663917003260 Smr domain; Region: Smr; pfam01713 663917003261 Predicted permease [General function prediction only]; Region: COG2985 663917003262 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 663917003263 TrkA-C domain; Region: TrkA_C; pfam02080 663917003264 TrkA-C domain; Region: TrkA_C; pfam02080 663917003265 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 663917003266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917003267 active site 663917003268 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 663917003269 glycogen synthase; Provisional; Region: glgA; PRK00654 663917003270 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 663917003271 ADP-binding pocket [chemical binding]; other site 663917003272 homodimer interface [polypeptide binding]; other site 663917003273 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917003274 heme-binding residues [chemical binding]; other site 663917003275 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 663917003276 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 663917003277 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 663917003278 putative active site; other site 663917003279 catalytic triad [active] 663917003280 putative dimer interface [polypeptide binding]; other site 663917003281 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 663917003282 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 663917003283 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917003284 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917003285 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 663917003286 dimerization interface [polypeptide binding]; other site 663917003287 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003288 dimer interface [polypeptide binding]; other site 663917003289 putative CheW interface [polypeptide binding]; other site 663917003290 conserved nucleotide sequence; KN400_R0165 663917003291 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 663917003292 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 663917003293 dimerization interface [polypeptide binding]; other site 663917003294 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003295 dimer interface [polypeptide binding]; other site 663917003296 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 663917003297 putative CheW interface [polypeptide binding]; other site 663917003298 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 663917003299 dimerization interface [polypeptide binding]; other site 663917003300 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917003301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003302 dimer interface [polypeptide binding]; other site 663917003303 putative CheW interface [polypeptide binding]; other site 663917003304 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 663917003305 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 663917003306 dimerization interface [polypeptide binding]; other site 663917003307 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917003308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003309 dimer interface [polypeptide binding]; other site 663917003310 putative CheW interface [polypeptide binding]; other site 663917003311 Nitrate and nitrite sensing; Region: NIT; pfam08376 663917003312 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 663917003313 dimerization interface [polypeptide binding]; other site 663917003314 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917003315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003316 dimer interface [polypeptide binding]; other site 663917003317 putative CheW interface [polypeptide binding]; other site 663917003318 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 663917003319 dimerization interface [polypeptide binding]; other site 663917003320 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917003321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003322 dimer interface [polypeptide binding]; other site 663917003323 putative CheW interface [polypeptide binding]; other site 663917003324 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 663917003325 SGF29 tudor-like domain; Region: DUF1325; pfam07039 663917003326 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 663917003327 dimer interface [polypeptide binding]; other site 663917003328 phosphorylation site [posttranslational modification] 663917003329 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 663917003330 ATP binding site [chemical binding]; other site 663917003331 Mg2+ binding site [ion binding]; other site 663917003332 G-X-G motif; other site 663917003333 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003334 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 663917003335 active site 663917003336 phosphorylation site [posttranslational modification] 663917003337 intermolecular recognition site; other site 663917003338 dimerization interface [polypeptide binding]; other site 663917003339 PAS fold; Region: PAS_4; pfam08448 663917003340 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917003341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917003342 metal binding site [ion binding]; metal-binding site 663917003343 active site 663917003344 I-site; other site 663917003345 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 663917003346 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003347 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 663917003348 active site 663917003349 phosphorylation site [posttranslational modification] 663917003350 intermolecular recognition site; other site 663917003351 dimerization interface [polypeptide binding]; other site 663917003352 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917003353 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 663917003354 phosphorylation site [posttranslational modification] 663917003355 dimer interface [polypeptide binding]; other site 663917003356 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 663917003357 ATP binding site [chemical binding]; other site 663917003358 Mg2+ binding site [ion binding]; other site 663917003359 G-X-G motif; other site 663917003360 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003361 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 663917003362 active site 663917003363 phosphorylation site [posttranslational modification] 663917003364 intermolecular recognition site; other site 663917003365 dimerization interface [polypeptide binding]; other site 663917003366 PAS domain; Region: PAS_9; pfam13426 663917003367 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 663917003368 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 663917003369 Walker A motif; other site 663917003370 ATP binding site [chemical binding]; other site 663917003371 Walker B motif; other site 663917003372 arginine finger; other site 663917003373 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917003374 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 663917003375 dimerization interface [polypeptide binding]; other site 663917003376 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917003377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003378 dimer interface [polypeptide binding]; other site 663917003379 putative CheW interface [polypeptide binding]; other site 663917003380 Hemerythrin; Region: Hemerythrin; cd12107 663917003381 Fe binding site [ion binding]; other site 663917003382 PAS fold; Region: PAS_4; pfam08448 663917003383 PAS fold; Region: PAS; pfam00989 663917003384 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 663917003385 putative active site [active] 663917003386 heme pocket [chemical binding]; other site 663917003387 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917003388 basic region leucin zipper; Region: BRLZ; smart00338 663917003389 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 663917003390 dimer interface [polypeptide binding]; other site 663917003391 phosphorylation site [posttranslational modification] 663917003392 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 663917003393 ATP binding site [chemical binding]; other site 663917003394 Mg2+ binding site [ion binding]; other site 663917003395 G-X-G motif; other site 663917003396 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 663917003397 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 663917003398 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 663917003399 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 663917003400 putative NADH binding site [chemical binding]; other site 663917003401 putative active site [active] 663917003402 nudix motif; other site 663917003403 putative metal binding site [ion binding]; other site 663917003404 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 663917003405 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 663917003406 SEC-C motif; Region: SEC-C; pfam02810 663917003407 hypothetical protein; Provisional; Region: PRK04233 663917003408 ribonuclease Z; Provisional; Region: PRK02126 663917003409 PAS domain; Region: PAS_9; pfam13426 663917003410 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 663917003411 dimer interface [polypeptide binding]; other site 663917003412 phosphorylation site [posttranslational modification] 663917003413 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 663917003414 ATP binding site [chemical binding]; other site 663917003415 Mg2+ binding site [ion binding]; other site 663917003416 G-X-G motif; other site 663917003417 conserved nucleotide sequence; KN400_R0166 663917003418 PilZ domain; Region: PilZ; cl01260 663917003419 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 663917003420 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 663917003421 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 663917003422 putative active site [active] 663917003423 heme pocket [chemical binding]; other site 663917003424 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 663917003425 CPxP motif; other site 663917003426 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 663917003427 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 663917003428 TPR repeat; Region: TPR_11; pfam13414 663917003429 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 663917003430 binding surface 663917003431 TPR motif; other site 663917003432 TPR repeat; Region: TPR_11; pfam13414 663917003433 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 663917003434 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 663917003435 CoA-ligase; Region: Ligase_CoA; pfam00549 663917003436 conserved nucleotide sequence; KN400_R0289 663917003437 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 663917003438 CoA binding domain; Region: CoA_binding; smart00881 663917003439 CoA-ligase; Region: Ligase_CoA; pfam00549 663917003440 aspartate aminotransferase; Provisional; Region: PRK06836 663917003441 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 663917003442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917003443 homodimer interface [polypeptide binding]; other site 663917003444 catalytic residue [active] 663917003445 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 663917003446 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 663917003447 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 663917003448 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 663917003449 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 663917003450 metal binding triad; other site 663917003451 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 663917003452 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 663917003453 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 663917003454 Na binding site [ion binding]; other site 663917003455 Protein of unknown function, DUF485; Region: DUF485; pfam04341 663917003456 conserved palindrome; KN400_R0167 663917003457 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 663917003458 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 663917003459 Na binding site [ion binding]; other site 663917003460 Protein of unknown function, DUF485; Region: DUF485; pfam04341 663917003461 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 663917003462 Transcriptional regulator [Transcription]; Region: IclR; COG1414 663917003463 Bacterial transcriptional regulator; Region: IclR; pfam01614 663917003464 hypothetical protein; Validated; Region: PRK00110 663917003465 conserved nucleotide sequence; KN400_R0168 663917003466 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 663917003467 active site 663917003468 putative DNA-binding cleft [nucleotide binding]; other site 663917003469 dimer interface [polypeptide binding]; other site 663917003470 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 663917003471 RuvA N terminal domain; Region: RuvA_N; pfam01330 663917003472 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 663917003473 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 663917003474 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 663917003475 Walker A motif; other site 663917003476 ATP binding site [chemical binding]; other site 663917003477 Walker B motif; other site 663917003478 arginine finger; other site 663917003479 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 663917003480 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 663917003481 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 663917003482 Walker A motif; other site 663917003483 ATP binding site [chemical binding]; other site 663917003484 Walker B motif; other site 663917003485 arginine finger; other site 663917003486 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 663917003487 Ligand Binding Site [chemical binding]; other site 663917003488 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 663917003489 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 663917003490 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 663917003491 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 663917003492 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 663917003493 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 663917003494 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 663917003495 ABC1 family; Region: ABC1; cl17513 663917003496 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 663917003497 Uncharacterized conserved protein [Function unknown]; Region: COG2006 663917003498 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917003499 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917003500 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 663917003501 active site 663917003502 phosphorylation site [posttranslational modification] 663917003503 intermolecular recognition site; other site 663917003504 dimerization interface [polypeptide binding]; other site 663917003505 Tim44-like domain; Region: Tim44; pfam04280 663917003506 GH3 auxin-responsive promoter; Region: GH3; pfam03321 663917003507 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 663917003508 PhoU domain; Region: PhoU; pfam01895 663917003509 PhoU domain; Region: PhoU; pfam01895 663917003510 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 663917003511 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 663917003512 Walker A/P-loop; other site 663917003513 ATP binding site [chemical binding]; other site 663917003514 Q-loop/lid; other site 663917003515 ABC transporter signature motif; other site 663917003516 Walker B; other site 663917003517 D-loop; other site 663917003518 H-loop/switch region; other site 663917003519 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 663917003520 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 663917003521 dimer interface [polypeptide binding]; other site 663917003522 conserved gate region; other site 663917003523 putative PBP binding loops; other site 663917003524 ABC-ATPase subunit interface; other site 663917003525 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 663917003526 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 663917003527 dimer interface [polypeptide binding]; other site 663917003528 conserved gate region; other site 663917003529 putative PBP binding loops; other site 663917003530 ABC-ATPase subunit interface; other site 663917003531 phosphate binding protein; Region: ptsS_2; TIGR02136 663917003532 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 663917003533 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 663917003534 dimerization interface [polypeptide binding]; other site 663917003535 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917003536 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 663917003537 putative active site [active] 663917003538 heme pocket [chemical binding]; other site 663917003539 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 663917003540 dimer interface [polypeptide binding]; other site 663917003541 phosphorylation site [posttranslational modification] 663917003542 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 663917003543 ATP binding site [chemical binding]; other site 663917003544 Mg2+ binding site [ion binding]; other site 663917003545 G-X-G motif; other site 663917003546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 663917003547 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 663917003548 active site 663917003549 phosphorylation site [posttranslational modification] 663917003550 intermolecular recognition site; other site 663917003551 dimerization interface [polypeptide binding]; other site 663917003552 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 663917003553 DNA binding site [nucleotide binding] 663917003554 conserved nucleotide sequence; KN400_R0169 663917003555 AMP-binding domain protein; Validated; Region: PRK08315 663917003556 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917003557 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 663917003558 acyl-activating enzyme (AAE) consensus motif; other site 663917003559 putative AMP binding site [chemical binding]; other site 663917003560 putative active site [active] 663917003561 putative CoA binding site [chemical binding]; other site 663917003562 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 663917003563 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 663917003564 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 663917003565 active site 663917003566 conserved nucleotide sequence; KN400_R0170 663917003567 conserved nucleotide sequence; KN400_R0171 663917003568 Saccharomyces cerevisiae (Sc) citrate synthase (CS)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS...; Region: ScCS-like; cd06103 663917003569 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 663917003570 dimer interface [polypeptide binding]; other site 663917003571 active site 663917003572 coenzyme A binding site [chemical binding]; other site 663917003573 citrylCoA binding site [chemical binding]; other site 663917003574 oxalacetate/citrate binding site [chemical binding]; other site 663917003575 catalytic triad [active] 663917003576 AMMECR1; Region: AMMECR1; pfam01871 663917003577 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 663917003578 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 663917003579 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 663917003580 NAD(P) binding site [chemical binding]; other site 663917003581 catalytic residues [active] 663917003582 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 663917003583 active site 663917003584 multimer interface [polypeptide binding]; other site 663917003585 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 663917003586 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 663917003587 FeS/SAM binding site; other site 663917003588 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 663917003589 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 663917003590 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 663917003591 substrate binding site [chemical binding]; other site 663917003592 ATP binding site [chemical binding]; other site 663917003593 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 663917003594 TPR repeat; Region: TPR_11; pfam13414 663917003595 binding surface 663917003596 TPR motif; other site 663917003597 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 663917003598 binding surface 663917003599 TPR motif; other site 663917003600 TPR repeat; Region: TPR_11; pfam13414 663917003601 TPR repeat; Region: TPR_11; pfam13414 663917003602 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 663917003603 binding surface 663917003604 TPR motif; other site 663917003605 TPR repeat; Region: TPR_11; pfam13414 663917003606 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 663917003607 non-specific DNA binding site [nucleotide binding]; other site 663917003608 salt bridge; other site 663917003609 sequence-specific DNA binding site [nucleotide binding]; other site 663917003610 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 663917003611 GAF domain; Region: GAF; pfam01590 663917003612 GAF domain; Region: GAF_2; pfam13185 663917003613 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003614 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 663917003615 active site 663917003616 phosphorylation site [posttranslational modification] 663917003617 intermolecular recognition site; other site 663917003618 dimerization interface [polypeptide binding]; other site 663917003619 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 663917003620 Ligand Binding Site [chemical binding]; other site 663917003621 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003622 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 663917003623 active site 663917003624 phosphorylation site [posttranslational modification] 663917003625 intermolecular recognition site; other site 663917003626 dimerization interface [polypeptide binding]; other site 663917003627 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 663917003628 dimer interface [polypeptide binding]; other site 663917003629 phosphorylation site [posttranslational modification] 663917003630 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 663917003631 ATP binding site [chemical binding]; other site 663917003632 Mg2+ binding site [ion binding]; other site 663917003633 G-X-G motif; other site 663917003634 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003635 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 663917003636 active site 663917003637 phosphorylation site [posttranslational modification] 663917003638 intermolecular recognition site; other site 663917003639 dimerization interface [polypeptide binding]; other site 663917003640 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 663917003641 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 663917003642 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 663917003643 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 663917003644 generic binding surface II; other site 663917003645 generic binding surface I; other site 663917003646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917003647 Zn2+ binding site [ion binding]; other site 663917003648 Mg2+ binding site [ion binding]; other site 663917003649 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 663917003650 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 663917003651 Flavoprotein; Region: Flavoprotein; pfam02441 663917003652 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 663917003653 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 663917003654 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 663917003655 Fe-S cluster binding site [ion binding]; other site 663917003656 active site 663917003657 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 663917003658 CoenzymeA binding site [chemical binding]; other site 663917003659 subunit interaction site [polypeptide binding]; other site 663917003660 PHB binding site; other site 663917003661 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917003662 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 663917003663 active site 663917003664 phosphorylation site [posttranslational modification] 663917003665 intermolecular recognition site; other site 663917003666 dimerization interface [polypeptide binding]; other site 663917003667 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 663917003668 Walker A motif; other site 663917003669 ATP binding site [chemical binding]; other site 663917003670 Walker B motif; other site 663917003671 arginine finger; other site 663917003672 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 663917003673 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 663917003674 Walker A/P-loop; other site 663917003675 ATP binding site [chemical binding]; other site 663917003676 Q-loop/lid; other site 663917003677 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 663917003678 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 663917003679 ABC transporter signature motif; other site 663917003680 Walker B; other site 663917003681 D-loop; other site 663917003682 H-loop/switch region; other site 663917003683 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 663917003684 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 663917003685 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 663917003686 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 663917003687 P loop; other site 663917003688 GTP binding site [chemical binding]; other site 663917003689 Protein of unknown function (DUF904); Region: DUF904; pfam06005 663917003690 Cell division protein ZapA; Region: ZapA; pfam05164 663917003691 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 663917003692 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 663917003693 phosphodiesterase; Provisional; Region: PRK12704 663917003694 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917003695 Zn2+ binding site [ion binding]; other site 663917003696 Mg2+ binding site [ion binding]; other site 663917003697 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 663917003698 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 663917003699 putative active site [active] 663917003700 metal binding site [ion binding]; metal-binding site 663917003701 homodimer binding site [polypeptide binding]; other site 663917003702 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 663917003703 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 663917003704 active site 663917003705 HIGH motif; other site 663917003706 dimer interface [polypeptide binding]; other site 663917003707 KMSKS motif; other site 663917003708 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 663917003709 RNA binding surface [nucleotide binding]; other site 663917003710 trRNA_2; KN400_R0172 663917003711 CHASE3 domain; Region: CHASE3; cl05000 663917003712 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 663917003713 dimerization interface [polypeptide binding]; other site 663917003714 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917003715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003716 dimer interface [polypeptide binding]; other site 663917003717 putative CheW interface [polypeptide binding]; other site 663917003718 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917003719 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 663917003720 dimerization interface [polypeptide binding]; other site 663917003721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917003722 dimer interface [polypeptide binding]; other site 663917003723 putative CheW interface [polypeptide binding]; other site 663917003724 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917003725 putative CheA interaction surface; other site 663917003726 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 663917003727 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 663917003728 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 663917003729 CheD chemotactic sensory transduction; Region: CheD; cl00810 663917003730 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 663917003731 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 663917003732 active site 663917003733 phosphorylation site [posttranslational modification] 663917003734 intermolecular recognition site; other site 663917003735 dimerization interface [polypeptide binding]; other site 663917003736 CheB methylesterase; Region: CheB_methylest; pfam01339 663917003737 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 663917003738 substrate binding pocket [chemical binding]; other site 663917003739 membrane-bound complex binding site; other site 663917003740 hinge residues; other site 663917003741 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 663917003742 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 663917003743 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917003744 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 663917003745 dimerization interface [polypeptide binding]; other site 663917003746 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 663917003747 dimer interface [polypeptide binding]; other site 663917003748 phosphorylation site [posttranslational modification] 663917003749 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 663917003750 ATP binding site [chemical binding]; other site 663917003751 Mg2+ binding site [ion binding]; other site 663917003752 G-X-G motif; other site 663917003753 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 663917003754 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 663917003755 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 663917003756 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 663917003757 B12 binding site [chemical binding]; other site 663917003758 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 663917003759 FeS/SAM binding site; other site 663917003760 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 663917003761 putative active site [active] 663917003762 YdjC motif; other site 663917003763 Mg binding site [ion binding]; other site 663917003764 putative homodimer interface [polypeptide binding]; other site 663917003765 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 663917003766 conserved nucleotide sequence; KN400_R0173 663917003767 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 663917003768 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 663917003769 Surface antigen; Region: Bac_surface_Ag; pfam01103 663917003770 haemagglutination activity domain; Region: Haemagg_act; pfam05860 663917003771 conserved nucleotide sequence; KN400_R0174 663917003772 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 663917003773 catalytic residues [active] 663917003774 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 663917003775 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 663917003776 putative dimer interface [polypeptide binding]; other site 663917003777 putative anticodon binding site; other site 663917003778 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 663917003779 homodimer interface [polypeptide binding]; other site 663917003780 motif 1; other site 663917003781 motif 2; other site 663917003782 active site 663917003783 motif 3; other site 663917003784 Protein of unknown function (DUF503); Region: DUF503; pfam04456 663917003785 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 663917003786 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 663917003787 intracellular protease, PfpI family; Region: PfpI; TIGR01382 663917003788 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 663917003789 proposed catalytic triad [active] 663917003790 conserved cys residue [active] 663917003791 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 663917003792 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 663917003793 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917003794 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917003795 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917003796 Walker A/P-loop; other site 663917003797 ATP binding site [chemical binding]; other site 663917003798 Q-loop/lid; other site 663917003799 ABC transporter signature motif; other site 663917003800 Walker B; other site 663917003801 D-loop; other site 663917003802 H-loop/switch region; other site 663917003803 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 663917003804 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917003805 FtsX-like permease family; Region: FtsX; pfam02687 663917003806 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917003807 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 663917003808 FtsX-like permease family; Region: FtsX; pfam02687 663917003809 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917003810 GAF domain; Region: GAF; pfam01590 663917003811 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 663917003812 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 663917003813 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 663917003814 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 663917003815 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 663917003816 binding surface 663917003817 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917003818 TPR motif; other site 663917003819 TPR repeat; Region: TPR_11; pfam13414 663917003820 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 663917003821 binding surface 663917003822 TPR motif; other site 663917003823 TPR repeat; Region: TPR_11; pfam13414 663917003824 YtxH-like protein; Region: YtxH; pfam12732 663917003825 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 663917003826 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 663917003827 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 663917003828 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 663917003829 catalytic residues [active] 663917003830 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 663917003831 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 663917003832 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 663917003833 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 663917003834 DNA binding site [nucleotide binding] 663917003835 active site 663917003836 conserved nucleotide sequence; KN400_R0175 663917003837 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 663917003838 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 663917003839 homodimer interface [polypeptide binding]; other site 663917003840 metal binding site [ion binding]; metal-binding site 663917003841 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 663917003842 homodimer interface [polypeptide binding]; other site 663917003843 active site 663917003844 putative chemical substrate binding site [chemical binding]; other site 663917003845 metal binding site [ion binding]; metal-binding site 663917003846 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 663917003847 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 663917003848 conserved nucleotide sequence; KN400_R0176 663917003849 conserved nucleotide sequence; KN400_R0177 663917003850 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 663917003851 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 663917003852 putative Iron-sulfur protein interface [polypeptide binding]; other site 663917003853 proximal heme binding site [chemical binding]; other site 663917003854 distal heme binding site [chemical binding]; other site 663917003855 putative dimer interface [polypeptide binding]; other site 663917003856 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 663917003857 L-aspartate oxidase; Provisional; Region: PRK06175 663917003858 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 663917003859 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 663917003860 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 663917003861 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 663917003862 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 663917003863 FtsH Extracellular; Region: FtsH_ext; pfam06480 663917003864 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 663917003865 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 663917003866 Walker B motif; other site 663917003867 arginine finger; other site 663917003868 Peptidase family M41; Region: Peptidase_M41; pfam01434 663917003869 4-alpha-glucanotransferase; Provisional; Region: PRK14508 663917003870 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 663917003871 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 663917003872 homodimer interface [polypeptide binding]; other site 663917003873 substrate-cofactor binding pocket; other site 663917003874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917003875 catalytic residue [active] 663917003876 Protein of unknown function, DUF479; Region: DUF479; pfam04336 663917003877 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 663917003878 conserved nucleotide sequence; KN400_R0178 663917003879 Transcription elongation factor Spt4; Region: Spt4; cl12033 663917003880 Rhomboid family; Region: Rhomboid; pfam01694 663917003881 Peptidase family M48; Region: Peptidase_M48; cl12018 663917003882 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 663917003883 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 663917003884 active site residue [active] 663917003885 PilZ domain; Region: PilZ; pfam07238 663917003886 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 663917003887 active site 663917003888 intersubunit interface [polypeptide binding]; other site 663917003889 zinc binding site [ion binding]; other site 663917003890 Na+ binding site [ion binding]; other site 663917003891 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 663917003892 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917003893 Zn2+ binding site [ion binding]; other site 663917003894 Mg2+ binding site [ion binding]; other site 663917003895 TIGR03987 family protein; Region: TIGR03987 663917003896 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 663917003897 conserved nucleotide sequence; KN400_R0179 663917003898 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 663917003899 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 663917003900 ligand binding site [chemical binding]; other site 663917003901 NAD binding site [chemical binding]; other site 663917003902 dimerization interface [polypeptide binding]; other site 663917003903 catalytic site [active] 663917003904 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 663917003905 putative L-serine binding site [chemical binding]; other site 663917003906 Staphylococcal nuclease homologues; Region: SNc; smart00318 663917003907 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 663917003908 Catalytic site; other site 663917003909 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 663917003910 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 663917003911 RNA binding site [nucleotide binding]; other site 663917003912 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 663917003913 RNA binding site [nucleotide binding]; other site 663917003914 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 663917003915 RNA binding site [nucleotide binding]; other site 663917003916 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 663917003917 RNA binding site [nucleotide binding]; other site 663917003918 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 663917003919 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 663917003920 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 663917003921 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 663917003922 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 663917003923 Substrate binding site; other site 663917003924 Cupin domain; Region: Cupin_2; cl17218 663917003925 potassium/proton antiporter; Reviewed; Region: PRK05326 663917003926 TrkA-C domain; Region: TrkA_C; pfam02080 663917003927 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 663917003928 putative cation:proton antiport protein; Provisional; Region: PRK10669 663917003929 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 663917003930 TrkA-N domain; Region: TrkA_N; pfam02254 663917003931 TrkA-C domain; Region: TrkA_C; pfam02080 663917003932 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 663917003933 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 663917003934 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 663917003935 Predicted membrane protein [Function unknown]; Region: COG2860 663917003936 UPF0126 domain; Region: UPF0126; pfam03458 663917003937 UPF0126 domain; Region: UPF0126; pfam03458 663917003938 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 663917003939 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 663917003940 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; cl00083 663917003941 active site 663917003942 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 663917003943 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 663917003944 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 663917003945 S-adenosylmethionine binding site [chemical binding]; other site 663917003946 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 663917003947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917003948 Walker A/P-loop; other site 663917003949 ATP binding site [chemical binding]; other site 663917003950 Q-loop/lid; other site 663917003951 ABC transporter signature motif; other site 663917003952 Walker B; other site 663917003953 D-loop; other site 663917003954 H-loop/switch region; other site 663917003955 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 663917003956 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 663917003957 Walker A/P-loop; other site 663917003958 ATP binding site [chemical binding]; other site 663917003959 Q-loop/lid; other site 663917003960 ABC transporter signature motif; other site 663917003961 Walker B; other site 663917003962 D-loop; other site 663917003963 H-loop/switch region; other site 663917003964 Domain of unknown function (DUF329); Region: DUF329; pfam03884 663917003965 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 663917003966 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 663917003967 HIGH motif; other site 663917003968 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 663917003969 active site 663917003970 KMSKS motif; other site 663917003971 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917003972 Response regulator receiver domain; Region: Response_reg; pfam00072 663917003973 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 663917003974 active site 663917003975 phosphorylation site [posttranslational modification] 663917003976 intermolecular recognition site; other site 663917003977 dimerization interface [polypeptide binding]; other site 663917003978 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 663917003979 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 663917003980 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 663917003981 active site 663917003982 Zn binding site [ion binding]; other site 663917003983 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 663917003984 binding surface 663917003985 TPR motif; other site 663917003986 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917003987 conserved nucleotide sequence; KN400_R0180 663917003988 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 663917003989 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 663917003990 Walker A/P-loop; other site 663917003991 ATP binding site [chemical binding]; other site 663917003992 Q-loop/lid; other site 663917003993 ABC transporter signature motif; other site 663917003994 Walker B; other site 663917003995 D-loop; other site 663917003996 H-loop/switch region; other site 663917003997 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917003998 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917003999 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917004000 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 663917004001 zinc binding site [ion binding]; other site 663917004002 putative ligand binding site [chemical binding]; other site 663917004003 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004004 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 663917004005 active site 663917004006 phosphorylation site [posttranslational modification] 663917004007 intermolecular recognition site; other site 663917004008 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 663917004009 active site 663917004010 metal binding site [ion binding]; metal-binding site 663917004011 homotetramer interface [polypeptide binding]; other site 663917004012 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 663917004013 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 663917004014 tandem repeat interface [polypeptide binding]; other site 663917004015 oligomer interface [polypeptide binding]; other site 663917004016 active site residues [active] 663917004017 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 663917004018 putative subunit interface; other site 663917004019 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 663917004020 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 663917004021 putative active site [active] 663917004022 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 663917004023 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917004024 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917004025 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 663917004026 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 663917004027 4Fe-4S binding domain; Region: Fer4; pfam00037 663917004028 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 663917004029 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 663917004030 active site 663917004031 FMN binding site [chemical binding]; other site 663917004032 substrate binding site [chemical binding]; other site 663917004033 3Fe-4S cluster binding site [ion binding]; other site 663917004034 PilZ domain; Region: PilZ; pfam07238 663917004035 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 663917004036 aspartate aminotransferase; Provisional; Region: PRK05764 663917004037 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 663917004038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917004039 homodimer interface [polypeptide binding]; other site 663917004040 catalytic residue [active] 663917004041 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 663917004042 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 663917004043 active site 663917004044 (T/H)XGH motif; other site 663917004045 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 663917004046 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 663917004047 S-adenosylmethionine binding site [chemical binding]; other site 663917004048 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 663917004049 active site 663917004050 intersubunit interface [polypeptide binding]; other site 663917004051 zinc binding site [ion binding]; other site 663917004052 Na+ binding site [ion binding]; other site 663917004053 conserved nucleotide sequence; KN400_R0181 663917004054 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 663917004055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917004056 Zn2+ binding site [ion binding]; other site 663917004057 Mg2+ binding site [ion binding]; other site 663917004058 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 663917004059 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 663917004060 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917004061 PAS domain; Region: PAS_8; pfam13188 663917004062 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 663917004063 putative active site [active] 663917004064 heme pocket [chemical binding]; other site 663917004065 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 663917004066 dimer interface [polypeptide binding]; other site 663917004067 phosphorylation site [posttranslational modification] 663917004068 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 663917004069 ATP binding site [chemical binding]; other site 663917004070 Mg2+ binding site [ion binding]; other site 663917004071 G-X-G motif; other site 663917004072 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917004073 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 663917004074 active site 663917004075 phosphorylation site [posttranslational modification] 663917004076 intermolecular recognition site; other site 663917004077 dimerization interface [polypeptide binding]; other site 663917004078 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 663917004079 Walker A motif; other site 663917004080 ATP binding site [chemical binding]; other site 663917004081 Walker B motif; other site 663917004082 arginine finger; other site 663917004083 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917004084 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004085 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004086 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004087 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004088 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004089 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004090 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004091 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004092 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004093 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004094 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004095 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004096 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004097 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004098 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004099 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004100 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004101 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004102 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004103 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917004104 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 663917004105 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 663917004106 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 663917004107 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 663917004108 Adenylate cyclase associated (CAP) N terminal; Region: CAP_N; pfam01213 663917004109 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 663917004110 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 663917004111 Cu(I) binding site [ion binding]; other site 663917004112 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 663917004113 Cu(I) binding site [ion binding]; other site 663917004114 Cytochrome c; Region: Cytochrom_C; pfam00034 663917004115 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 663917004116 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 663917004117 NosL; Region: NosL; cl01769 663917004118 FtsX-like permease family; Region: FtsX; pfam02687 663917004119 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917004120 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917004121 Walker A/P-loop; other site 663917004122 ATP binding site [chemical binding]; other site 663917004123 Q-loop/lid; other site 663917004124 ABC transporter signature motif; other site 663917004125 Walker B; other site 663917004126 D-loop; other site 663917004127 H-loop/switch region; other site 663917004128 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 663917004129 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 663917004130 putative binding surface; other site 663917004131 active site 663917004132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917004133 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 663917004134 dimer interface [polypeptide binding]; other site 663917004135 phosphorylation site [posttranslational modification] 663917004136 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 663917004137 ATP binding site [chemical binding]; other site 663917004138 Mg2+ binding site [ion binding]; other site 663917004139 G-X-G motif; other site 663917004140 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004141 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 663917004142 active site 663917004143 phosphorylation site [posttranslational modification] 663917004144 intermolecular recognition site; other site 663917004145 dimerization interface [polypeptide binding]; other site 663917004146 GTP-binding protein LepA; Provisional; Region: PRK05433 663917004147 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 663917004148 G1 box; other site 663917004149 putative GEF interaction site [polypeptide binding]; other site 663917004150 GTP/Mg2+ binding site [chemical binding]; other site 663917004151 Switch I region; other site 663917004152 G2 box; other site 663917004153 G3 box; other site 663917004154 Switch II region; other site 663917004155 G4 box; other site 663917004156 G5 box; other site 663917004157 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 663917004158 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 663917004159 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 663917004160 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 663917004161 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 663917004162 Catalytic site [active] 663917004163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 663917004164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917004165 LysR substrate binding domain; Region: LysR_substrate; pfam03466 663917004166 dimerization interface [polypeptide binding]; other site 663917004167 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 663917004168 Uncharacterized conserved protein [Function unknown]; Region: COG5276 663917004169 LVIVD repeat; Region: LVIVD; pfam08309 663917004170 conserved nucleotide sequence; KN400_R0182 663917004171 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 663917004172 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917004173 active site 663917004174 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 663917004175 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 663917004176 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 663917004177 dihydroorotase; Validated; Region: pyrC; PRK09357 663917004178 Amidohydrolase; Region: Amidohydro_5; pfam13594 663917004179 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 663917004180 active site 663917004181 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 663917004182 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 663917004183 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 663917004184 catalytic site [active] 663917004185 subunit interface [polypeptide binding]; other site 663917004186 Radical SAM superfamily; Region: Radical_SAM; pfam04055 663917004187 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 663917004188 FeS/SAM binding site; other site 663917004189 Protein of unknown function, DUF486; Region: DUF486; cl01236 663917004190 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 663917004191 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 663917004192 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 663917004193 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 663917004194 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 663917004195 ATP-grasp domain; Region: ATP-grasp_4; cl17255 663917004196 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 663917004197 IMP binding site; other site 663917004198 dimer interface [polypeptide binding]; other site 663917004199 partial ornithine binding site; other site 663917004200 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 663917004201 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 663917004202 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 663917004203 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 663917004204 cobalt transport protein CbiM; Validated; Region: PRK06265 663917004205 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 663917004206 PDGLE domain; Region: PDGLE; pfam13190 663917004207 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 663917004208 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 663917004209 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 663917004210 Walker A/P-loop; other site 663917004211 ATP binding site [chemical binding]; other site 663917004212 Q-loop/lid; other site 663917004213 ABC transporter signature motif; other site 663917004214 Walker B; other site 663917004215 D-loop; other site 663917004216 H-loop/switch region; other site 663917004217 NosL; Region: NosL; cl01769 663917004218 PAS domain S-box; Region: sensory_box; TIGR00229 663917004219 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 663917004220 putative active site [active] 663917004221 heme pocket [chemical binding]; other site 663917004222 PAS domain; Region: PAS; smart00091 663917004223 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917004224 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 663917004225 dimer interface [polypeptide binding]; other site 663917004226 phosphorylation site [posttranslational modification] 663917004227 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 663917004228 ATP binding site [chemical binding]; other site 663917004229 Mg2+ binding site [ion binding]; other site 663917004230 G-X-G motif; other site 663917004231 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004232 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 663917004233 active site 663917004234 phosphorylation site [posttranslational modification] 663917004235 intermolecular recognition site; other site 663917004236 dimerization interface [polypeptide binding]; other site 663917004237 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 663917004238 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004239 active site 663917004240 phosphorylation site [posttranslational modification] 663917004241 intermolecular recognition site; other site 663917004242 dimerization interface [polypeptide binding]; other site 663917004243 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917004244 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917004245 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004246 dimer interface [polypeptide binding]; other site 663917004247 putative CheW interface [polypeptide binding]; other site 663917004248 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 663917004249 anti sigma factor interaction site; other site 663917004250 regulatory phosphorylation site [posttranslational modification]; other site 663917004251 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917004252 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 663917004253 active site 663917004254 phosphorylation site [posttranslational modification] 663917004255 intermolecular recognition site; other site 663917004256 dimerization interface [polypeptide binding]; other site 663917004257 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 663917004258 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 663917004259 putative binding surface; other site 663917004260 active site 663917004261 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 663917004262 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 663917004263 ATP binding site [chemical binding]; other site 663917004264 Mg2+ binding site [ion binding]; other site 663917004265 G-X-G motif; other site 663917004266 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 663917004267 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004268 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 663917004269 active site 663917004270 phosphorylation site [posttranslational modification] 663917004271 intermolecular recognition site; other site 663917004272 dimerization interface [polypeptide binding]; other site 663917004273 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 663917004274 putative active site [active] 663917004275 heme pocket [chemical binding]; other site 663917004276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 663917004277 Histidine kinase; Region: HisKA_3; pfam07730 663917004278 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 663917004279 ATP binding site [chemical binding]; other site 663917004280 Mg2+ binding site [ion binding]; other site 663917004281 G-X-G motif; other site 663917004282 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 663917004283 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 663917004284 active site 663917004285 phosphorylation site [posttranslational modification] 663917004286 intermolecular recognition site; other site 663917004287 dimerization interface [polypeptide binding]; other site 663917004288 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 663917004289 DNA binding residues [nucleotide binding] 663917004290 dimerization interface [polypeptide binding]; other site 663917004291 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917004292 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 663917004293 dimerization interface [polypeptide binding]; other site 663917004294 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917004295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004296 dimer interface [polypeptide binding]; other site 663917004297 putative CheW interface [polypeptide binding]; other site 663917004298 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917004299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 663917004300 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 663917004301 dimer interface [polypeptide binding]; other site 663917004302 phosphorylation site [posttranslational modification] 663917004303 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 663917004304 ATP binding site [chemical binding]; other site 663917004305 Mg2+ binding site [ion binding]; other site 663917004306 G-X-G motif; other site 663917004307 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 663917004308 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004309 active site 663917004310 phosphorylation site [posttranslational modification] 663917004311 intermolecular recognition site; other site 663917004312 dimerization interface [polypeptide binding]; other site 663917004313 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917004314 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917004315 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 663917004316 dimerization interface [polypeptide binding]; other site 663917004317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004318 dimer interface [polypeptide binding]; other site 663917004319 putative CheW interface [polypeptide binding]; other site 663917004320 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917004321 putative CheA interaction surface; other site 663917004322 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; cl01054 663917004323 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 663917004324 dimerization interface [polypeptide binding]; other site 663917004325 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004326 dimer interface [polypeptide binding]; other site 663917004327 putative CheW interface [polypeptide binding]; other site 663917004328 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917004329 putative CheA interaction surface; other site 663917004330 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 663917004331 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 663917004332 dimerization interface [polypeptide binding]; other site 663917004333 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 663917004334 dimer interface [polypeptide binding]; other site 663917004335 phosphorylation site [posttranslational modification] 663917004336 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 663917004337 ATP binding site [chemical binding]; other site 663917004338 Mg2+ binding site [ion binding]; other site 663917004339 G-X-G motif; other site 663917004340 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 663917004341 active site 663917004342 phosphorylation site [posttranslational modification] 663917004343 intermolecular recognition site; other site 663917004344 dimerization interface [polypeptide binding]; other site 663917004345 conserved nucleotide sequence; KN400_R0183 663917004346 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 663917004347 dimerization interface [polypeptide binding]; other site 663917004348 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917004349 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004350 dimer interface [polypeptide binding]; other site 663917004351 putative CheW interface [polypeptide binding]; other site 663917004352 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 663917004353 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917004354 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 663917004355 dimerization interface [polypeptide binding]; other site 663917004356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004357 dimer interface [polypeptide binding]; other site 663917004358 putative CheW interface [polypeptide binding]; other site 663917004359 conserved nucleotide sequence; KN400_R0184 663917004360 glutamate dehydrogenase; Provisional; Region: PRK09414 663917004361 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 663917004362 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 663917004363 NAD(P) binding site [chemical binding]; other site 663917004364 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 663917004365 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 663917004366 active site 663917004367 Phosphotransferase enzyme family; Region: APH; pfam01636 663917004368 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 663917004369 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 663917004370 Ferritin-like domain; Region: Ferritin; pfam00210 663917004371 ferroxidase diiron center [ion binding]; other site 663917004372 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 663917004373 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 663917004374 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 663917004375 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 663917004376 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 663917004377 active site 663917004378 dimer interface [polypeptide binding]; other site 663917004379 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 663917004380 dimer interface [polypeptide binding]; other site 663917004381 active site 663917004382 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 663917004383 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 663917004384 FeS/SAM binding site; other site 663917004385 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 663917004386 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 663917004387 Uncharacterized conserved protein [Function unknown]; Region: COG0398 663917004388 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 663917004389 mercuric reductase; Validated; Region: PRK06370 663917004390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917004391 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 663917004392 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004393 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 663917004394 active site 663917004395 phosphorylation site [posttranslational modification] 663917004396 intermolecular recognition site; other site 663917004397 dimerization interface [polypeptide binding]; other site 663917004398 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917004399 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917004400 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 663917004401 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 663917004402 substrate binding pocket [chemical binding]; other site 663917004403 chain length determination region; other site 663917004404 substrate-Mg2+ binding site; other site 663917004405 catalytic residues [active] 663917004406 aspartate-rich region 1; other site 663917004407 active site lid residues [active] 663917004408 aspartate-rich region 2; other site 663917004409 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 663917004410 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 663917004411 dimer interface [polypeptide binding]; other site 663917004412 phosphorylation site [posttranslational modification] 663917004413 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 663917004414 ATP binding site [chemical binding]; other site 663917004415 Mg2+ binding site [ion binding]; other site 663917004416 G-X-G motif; other site 663917004417 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917004418 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 663917004419 active site 663917004420 phosphorylation site [posttranslational modification] 663917004421 intermolecular recognition site; other site 663917004422 dimerization interface [polypeptide binding]; other site 663917004423 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 663917004424 Walker A motif; other site 663917004425 ATP binding site [chemical binding]; other site 663917004426 Walker B motif; other site 663917004427 arginine finger; other site 663917004428 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917004429 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 663917004430 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 663917004431 catalytic residues [active] 663917004432 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 663917004433 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 663917004434 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 663917004435 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 663917004436 active site 663917004437 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 663917004438 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 663917004439 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 663917004440 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 663917004441 generic binding surface II; other site 663917004442 ssDNA binding site; other site 663917004443 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 663917004444 ATP binding site [chemical binding]; other site 663917004445 putative Mg++ binding site [ion binding]; other site 663917004446 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 663917004447 nucleotide binding region [chemical binding]; other site 663917004448 ATP-binding site [chemical binding]; other site 663917004449 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 663917004450 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 663917004451 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 663917004452 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 663917004453 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 663917004454 active site 663917004455 HIGH motif; other site 663917004456 nucleotide binding site [chemical binding]; other site 663917004457 active site 663917004458 KMSKS motif; other site 663917004459 Outer membrane efflux protein; Region: OEP; pfam02321 663917004460 Outer membrane efflux protein; Region: OEP; pfam02321 663917004461 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 663917004462 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917004463 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 663917004464 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 663917004465 heme-binding residues [chemical binding]; other site 663917004466 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 663917004467 three overlapping hairpins; KN400_R0185 663917004468 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 663917004469 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 663917004470 metal-binding site [ion binding] 663917004471 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 663917004472 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 663917004473 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917004474 FtsX-like permease family; Region: FtsX; pfam02687 663917004475 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917004476 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917004477 Walker A/P-loop; other site 663917004478 ATP binding site [chemical binding]; other site 663917004479 Q-loop/lid; other site 663917004480 ABC transporter signature motif; other site 663917004481 Walker B; other site 663917004482 D-loop; other site 663917004483 H-loop/switch region; other site 663917004484 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 663917004485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917004486 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 663917004487 dimerization interface [polypeptide binding]; other site 663917004488 substrate binding pocket [chemical binding]; other site 663917004489 Isochorismatase family; Region: Isochorismatase; pfam00857 663917004490 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 663917004491 catalytic triad [active] 663917004492 dimer interface [polypeptide binding]; other site 663917004493 conserved cis-peptide bond; other site 663917004494 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 663917004495 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 663917004496 active site 663917004497 Predicted transcriptional regulator [Transcription]; Region: COG1959 663917004498 Transcriptional regulator; Region: Rrf2; pfam02082 663917004499 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 663917004500 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 663917004501 substrate binding pocket [chemical binding]; other site 663917004502 membrane-bound complex binding site; other site 663917004503 hinge residues; other site 663917004504 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 663917004505 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 663917004506 dimer interface [polypeptide binding]; other site 663917004507 conserved gate region; other site 663917004508 putative PBP binding loops; other site 663917004509 ABC-ATPase subunit interface; other site 663917004510 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 663917004511 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 663917004512 dimer interface [polypeptide binding]; other site 663917004513 conserved gate region; other site 663917004514 putative PBP binding loops; other site 663917004515 ABC-ATPase subunit interface; other site 663917004516 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 663917004517 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 663917004518 Walker A/P-loop; other site 663917004519 ATP binding site [chemical binding]; other site 663917004520 Q-loop/lid; other site 663917004521 ABC transporter signature motif; other site 663917004522 Walker B; other site 663917004523 D-loop; other site 663917004524 H-loop/switch region; other site 663917004525 TOBE-like domain; Region: TOBE_3; pfam12857 663917004526 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 663917004527 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 663917004528 putative transposase OrfB; Reviewed; Region: PHA02517 663917004529 HTH-like domain; Region: HTH_21; pfam13276 663917004530 Integrase core domain; Region: rve; pfam00665 663917004531 Integrase core domain; Region: rve_3; cl15866 663917004532 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 663917004533 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 663917004534 DNA binding site [nucleotide binding] 663917004535 substrate interaction site [chemical binding]; other site 663917004536 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 663917004537 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 663917004538 additional DNA contacts [nucleotide binding]; other site 663917004539 mismatch recognition site; other site 663917004540 active site 663917004541 zinc binding site [ion binding]; other site 663917004542 DNA intercalation site [nucleotide binding]; other site 663917004543 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 663917004544 DEAD-like helicases superfamily; Region: DEXDc; smart00487 663917004545 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 663917004546 ATP binding site [chemical binding]; other site 663917004547 putative Mg++ binding site [ion binding]; other site 663917004548 Family description; Region: UvrD_C_2; pfam13538 663917004549 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 663917004550 ATP-binding site [chemical binding]; other site 663917004551 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 663917004552 conserved nucleotide sequence; KN400_R0186 663917004553 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 663917004554 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 663917004555 conserved nucleotide sequence; KN400_R0187 663917004556 conserved nucleotide sequence; KN400_R0188 663917004557 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 663917004558 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 663917004559 active site 663917004560 catalytic tetrad [active] 663917004561 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 663917004562 conserved nucleotide sequence; KN400_R0072 663917004563 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 663917004564 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 663917004565 active site 663917004566 FMN binding site [chemical binding]; other site 663917004567 substrate binding site [chemical binding]; other site 663917004568 homotetramer interface [polypeptide binding]; other site 663917004569 catalytic residue [active] 663917004570 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 663917004571 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 663917004572 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917004573 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917004574 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 663917004575 dimerization interface [polypeptide binding]; other site 663917004576 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917004577 dimer interface [polypeptide binding]; other site 663917004578 putative CheW interface [polypeptide binding]; other site 663917004579 conserved nucleotide sequence; KN400_R0189 663917004580 conserved nucleotide sequence; KN400_R0190 663917004581 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 663917004582 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 663917004583 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 663917004584 substrate binding site [chemical binding]; other site 663917004585 oxyanion hole (OAH) forming residues; other site 663917004586 trimer interface [polypeptide binding]; other site 663917004587 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 663917004588 Beta-lactamase; Region: Beta-lactamase; pfam00144 663917004589 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 663917004590 metal binding site 2 [ion binding]; metal-binding site 663917004591 putative DNA binding helix; other site 663917004592 metal binding site 1 [ion binding]; metal-binding site 663917004593 dimer interface [polypeptide binding]; other site 663917004594 structural Zn2+ binding site [ion binding]; other site 663917004595 conserved nucleotide sequence; KN400_R0073 663917004596 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 663917004597 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 663917004598 G1 box; other site 663917004599 GTP/Mg2+ binding site [chemical binding]; other site 663917004600 Switch I region; other site 663917004601 G2 box; other site 663917004602 G3 box; other site 663917004603 Switch II region; other site 663917004604 G4 box; other site 663917004605 G5 box; other site 663917004606 Nucleoside recognition; Region: Gate; pfam07670 663917004607 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 663917004608 Nucleoside recognition; Region: Gate; pfam07670 663917004609 threonine synthase; Validated; Region: PRK06260 663917004610 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 663917004611 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 663917004612 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 663917004613 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 663917004614 active site 663917004615 catalytic site [active] 663917004616 substrate binding site [chemical binding]; other site 663917004617 helicase Cas3; Provisional; Region: PRK09694 663917004618 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 663917004619 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 663917004620 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 663917004621 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 663917004622 CT1975-like protein; Region: Cas_CT1975; pfam09344 663917004623 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 663917004624 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 663917004625 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 663917004626 mobile mystery protein A; Region: mob_myst_A; TIGR02612 663917004627 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 663917004628 non-specific DNA binding site [nucleotide binding]; other site 663917004629 salt bridge; other site 663917004630 sequence-specific DNA binding site [nucleotide binding]; other site 663917004631 mobile mystery protein B; Region: mob_myst_B; TIGR02613 663917004632 Fic/DOC family; Region: Fic; pfam02661 663917004633 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 663917004634 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 663917004635 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 663917004636 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 663917004637 Interdomain contacts; other site 663917004638 Cytokine receptor motif; other site 663917004639 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 663917004640 ligand binding site [chemical binding]; other site 663917004641 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 663917004642 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 663917004643 Cu(I) binding site [ion binding]; other site 663917004644 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 663917004645 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 663917004646 oligomer interface [polypeptide binding]; other site 663917004647 metal binding site [ion binding]; metal-binding site 663917004648 metal binding site [ion binding]; metal-binding site 663917004649 Cl binding site [ion binding]; other site 663917004650 aspartate ring; other site 663917004651 basic sphincter; other site 663917004652 putative hydrophobic gate; other site 663917004653 periplasmic entrance; other site 663917004654 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 663917004655 PAS domain; Region: PAS_9; pfam13426 663917004656 putative active site [active] 663917004657 heme pocket [chemical binding]; other site 663917004658 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917004659 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917004660 metal binding site [ion binding]; metal-binding site 663917004661 active site 663917004662 I-site; other site 663917004663 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 663917004664 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 663917004665 active site 663917004666 PHP Thumb interface [polypeptide binding]; other site 663917004667 metal binding site [ion binding]; metal-binding site 663917004668 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 663917004669 generic binding surface II; other site 663917004670 generic binding surface I; other site 663917004671 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 663917004672 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 663917004673 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 663917004674 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 663917004675 RNA binding surface [nucleotide binding]; other site 663917004676 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 663917004677 active site 663917004678 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 663917004679 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 663917004680 FeS/SAM binding site; other site 663917004681 Rdx family; Region: Rdx; pfam10262 663917004682 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 663917004683 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 663917004684 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 663917004685 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 663917004686 trimerization site [polypeptide binding]; other site 663917004687 active site 663917004688 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 663917004689 DNA binding residues [nucleotide binding] 663917004690 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 663917004691 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 663917004692 Sodium Bile acid symporter family; Region: SBF; cl17470 663917004693 Domain of unknown function DUF302; Region: DUF302; cl01364 663917004694 Uncharacterized conserved protein [Function unknown]; Region: COG1433 663917004695 PAS domain S-box; Region: sensory_box; TIGR00229 663917004696 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 663917004697 putative active site [active] 663917004698 heme pocket [chemical binding]; other site 663917004699 PAS domain S-box; Region: sensory_box; TIGR00229 663917004700 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 663917004701 putative active site [active] 663917004702 heme pocket [chemical binding]; other site 663917004703 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917004704 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 663917004705 putative active site [active] 663917004706 heme pocket [chemical binding]; other site 663917004707 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 663917004708 dimer interface [polypeptide binding]; other site 663917004709 phosphorylation site [posttranslational modification] 663917004710 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 663917004711 ATP binding site [chemical binding]; other site 663917004712 Mg2+ binding site [ion binding]; other site 663917004713 G-X-G motif; other site 663917004714 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917004715 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 663917004716 active site 663917004717 phosphorylation site [posttranslational modification] 663917004718 intermolecular recognition site; other site 663917004719 dimerization interface [polypeptide binding]; other site 663917004720 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004721 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 663917004722 active site 663917004723 phosphorylation site [posttranslational modification] 663917004724 intermolecular recognition site; other site 663917004725 dimerization interface [polypeptide binding]; other site 663917004726 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 663917004727 Response regulator receiver domain; Region: Response_reg; pfam00072 663917004728 active site 663917004729 phosphorylation site [posttranslational modification] 663917004730 intermolecular recognition site; other site 663917004731 dimerization interface [polypeptide binding]; other site 663917004732 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 663917004733 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 663917004734 non-specific DNA binding site [nucleotide binding]; other site 663917004735 salt bridge; other site 663917004736 sequence-specific DNA binding site [nucleotide binding]; other site 663917004737 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 663917004738 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 663917004739 RNA binding surface [nucleotide binding]; other site 663917004740 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 663917004741 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 663917004742 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 663917004743 active site 663917004744 metal binding site [ion binding]; metal-binding site 663917004745 DNA binding site [nucleotide binding] 663917004746 P-loop containing region of AAA domain; Region: AAA_29; cl17516 663917004747 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 663917004748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917004749 ABC transporter signature motif; other site 663917004750 Walker B; other site 663917004751 D-loop; other site 663917004752 H-loop/switch region; other site 663917004753 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 663917004754 nucleotide binding site/active site [active] 663917004755 HIT family signature motif; other site 663917004756 catalytic residue [active] 663917004757 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 663917004758 conserved nucleotide sequence; KN400_R0074 663917004759 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 663917004760 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 663917004761 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 663917004762 ATP binding site [chemical binding]; other site 663917004763 Mg2+ binding site [ion binding]; other site 663917004764 G-X-G motif; other site 663917004765 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 663917004766 anti sigma factor interaction site; other site 663917004767 regulatory phosphorylation site [posttranslational modification]; other site 663917004768 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 663917004769 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 663917004770 Na binding site [ion binding]; other site 663917004771 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917004772 GAF domain; Region: GAF_2; pfam13185 663917004773 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 663917004774 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 663917004775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 663917004776 Predicted kinase [General function prediction only]; Region: COG0645 663917004777 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 663917004778 active site 663917004779 TPR repeat; Region: TPR_11; pfam13414 663917004780 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 663917004781 binding surface 663917004782 TPR motif; other site 663917004783 TPR repeat; Region: TPR_11; pfam13414 663917004784 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 663917004785 TPR motif; other site 663917004786 binding surface 663917004787 TPR repeat; Region: TPR_11; pfam13414 663917004788 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 663917004789 binding surface 663917004790 TPR motif; other site 663917004791 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 663917004792 binding surface 663917004793 TPR motif; other site 663917004794 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 663917004795 binding surface 663917004796 TPR motif; other site 663917004797 TPR repeat; Region: TPR_11; pfam13414 663917004798 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 663917004799 binding surface 663917004800 TPR motif; other site 663917004801 TPR repeat; Region: TPR_11; pfam13414 663917004802 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 663917004803 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 663917004804 peptide binding site [polypeptide binding]; other site 663917004805 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 663917004806 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 663917004807 dimer interface [polypeptide binding]; other site 663917004808 conserved gate region; other site 663917004809 putative PBP binding loops; other site 663917004810 ABC-ATPase subunit interface; other site 663917004811 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 663917004812 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 663917004813 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 663917004814 dimer interface [polypeptide binding]; other site 663917004815 conserved gate region; other site 663917004816 putative PBP binding loops; other site 663917004817 ABC-ATPase subunit interface; other site 663917004818 Peptidase family M48; Region: Peptidase_M48; pfam01435 663917004819 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 663917004820 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 663917004821 Walker A motif; other site 663917004822 ATP binding site [chemical binding]; other site 663917004823 Walker B motif; other site 663917004824 arginine finger; other site 663917004825 conserved nucleotide sequence; KN400_R0191 663917004826 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 663917004827 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917004828 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917004829 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 663917004830 active site clefts [active] 663917004831 zinc binding site [ion binding]; other site 663917004832 dimer interface [polypeptide binding]; other site 663917004833 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917004834 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 663917004835 dimerization interface [polypeptide binding]; other site 663917004836 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 663917004837 dimer interface [polypeptide binding]; other site 663917004838 phosphorylation site [posttranslational modification] 663917004839 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 663917004840 ATP binding site [chemical binding]; other site 663917004841 Mg2+ binding site [ion binding]; other site 663917004842 G-X-G motif; other site 663917004843 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917004844 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 663917004845 active site 663917004846 phosphorylation site [posttranslational modification] 663917004847 intermolecular recognition site; other site 663917004848 dimerization interface [polypeptide binding]; other site 663917004849 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 663917004850 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 663917004851 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 663917004852 FeS/SAM binding site; other site 663917004853 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 663917004854 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 663917004855 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 663917004856 active site 663917004857 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 663917004858 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 663917004859 endonuclease III; Region: ENDO3c; smart00478 663917004860 minor groove reading motif; other site 663917004861 helix-hairpin-helix signature motif; other site 663917004862 substrate binding pocket [chemical binding]; other site 663917004863 active site 663917004864 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 663917004865 TRAM domain; Region: TRAM; cl01282 663917004866 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 663917004867 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 663917004868 S-adenosylmethionine binding site [chemical binding]; other site 663917004869 HEAT repeats; Region: HEAT_2; pfam13646 663917004870 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 663917004871 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 663917004872 DXD motif; other site 663917004873 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 663917004874 binding surface 663917004875 TPR repeat; Region: TPR_11; pfam13414 663917004876 TPR motif; other site 663917004877 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 663917004878 putative active site [active] 663917004879 putative metal binding site [ion binding]; other site 663917004880 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 663917004881 binding surface 663917004882 TPR motif; other site 663917004883 Tetratricopeptide repeat; Region: TPR_12; pfam13424 663917004884 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 663917004885 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 663917004886 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 663917004887 prolyl-tRNA synthetase; Provisional; Region: PRK09194 663917004888 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 663917004889 dimer interface [polypeptide binding]; other site 663917004890 motif 1; other site 663917004891 active site 663917004892 motif 2; other site 663917004893 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 663917004894 putative deacylase active site [active] 663917004895 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 663917004896 active site 663917004897 motif 3; other site 663917004898 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 663917004899 anticodon binding site; other site 663917004900 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 663917004901 active site 663917004902 dimer interface [polypeptide binding]; other site 663917004903 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 663917004904 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 663917004905 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 663917004906 conserved nucleotide sequence; KN400_R0192 663917004907 conserved nucleotide sequence; KN400_R0193 663917004908 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 663917004909 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 663917004910 dimer interface [polypeptide binding]; other site 663917004911 anticodon binding site; other site 663917004912 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 663917004913 homodimer interface [polypeptide binding]; other site 663917004914 motif 1; other site 663917004915 active site 663917004916 motif 2; other site 663917004917 GAD domain; Region: GAD; pfam02938 663917004918 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 663917004919 motif 3; other site 663917004920 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917004921 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 663917004922 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 663917004923 malate dehydrogenase; Reviewed; Region: PRK06223 663917004924 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 663917004925 NAD(P) binding site [chemical binding]; other site 663917004926 dimer interface [polypeptide binding]; other site 663917004927 tetramer (dimer of dimers) interface [polypeptide binding]; other site 663917004928 substrate binding site [chemical binding]; other site 663917004929 conserved palindrome; KN400_R0194 663917004930 conserved nucleotide sequence; KN400_R0195 663917004931 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917004932 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 663917004933 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 663917004934 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 663917004935 dimer interface [polypeptide binding]; other site 663917004936 PYR/PP interface [polypeptide binding]; other site 663917004937 TPP binding site [chemical binding]; other site 663917004938 substrate binding site [chemical binding]; other site 663917004939 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917004940 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 663917004941 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 663917004942 TPP-binding site [chemical binding]; other site 663917004943 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 663917004944 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 663917004945 palindrome; KN400_R0196 663917004946 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917004947 Zn2+ binding site [ion binding]; other site 663917004948 Mg2+ binding site [ion binding]; other site 663917004949 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 663917004950 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 663917004951 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 663917004952 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 663917004953 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 663917004954 LemA family; Region: LemA; pfam04011 663917004955 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 663917004956 Repair protein; Region: Repair_PSII; pfam04536 663917004957 Repair protein; Region: Repair_PSII; cl01535 663917004958 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 663917004959 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 663917004960 putative substrate translocation pore; other site 663917004961 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 663917004962 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 663917004963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917004964 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917004965 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 663917004966 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 663917004967 MarR family; Region: MarR; pfam01047 663917004968 MarR family; Region: MarR_2; cl17246 663917004969 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 663917004970 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 663917004971 TPR motif; other site 663917004972 binding surface 663917004973 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 663917004974 binding surface 663917004975 TPR motif; other site 663917004976 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 663917004977 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 663917004978 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 663917004979 N-acetyl-D-glucosamine binding site [chemical binding]; other site 663917004980 catalytic residue [active] 663917004981 ribonuclease R; Region: RNase_R; TIGR02063 663917004982 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 663917004983 RNB domain; Region: RNB; pfam00773 663917004984 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 663917004985 RNA binding site [nucleotide binding]; other site 663917004986 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 663917004987 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 663917004988 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 663917004989 active site 663917004990 Riboflavin kinase; Region: Flavokinase; pfam01687 663917004991 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 663917004992 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 663917004993 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 663917004994 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 663917004995 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 663917004996 shikimate binding site; other site 663917004997 NAD(P) binding site [chemical binding]; other site 663917004998 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 663917004999 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917005000 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 663917005001 Walker A motif; other site 663917005002 ATP binding site [chemical binding]; other site 663917005003 Walker B motif; other site 663917005004 conserved nucleotide sequence; KN400_R0197 663917005005 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 663917005006 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 663917005007 Walker A motif; other site 663917005008 ATP binding site [chemical binding]; other site 663917005009 Walker B motif; other site 663917005010 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 663917005011 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 663917005012 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 663917005013 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917005014 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 663917005015 putative active site [active] 663917005016 heme pocket [chemical binding]; other site 663917005017 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 663917005018 dimer interface [polypeptide binding]; other site 663917005019 phosphorylation site [posttranslational modification] 663917005020 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 663917005021 ATP binding site [chemical binding]; other site 663917005022 Mg2+ binding site [ion binding]; other site 663917005023 G-X-G motif; other site 663917005024 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917005025 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 663917005026 active site 663917005027 phosphorylation site [posttranslational modification] 663917005028 intermolecular recognition site; other site 663917005029 dimerization interface [polypeptide binding]; other site 663917005030 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 663917005031 Walker A motif; other site 663917005032 ATP binding site [chemical binding]; other site 663917005033 Walker B motif; other site 663917005034 arginine finger; other site 663917005035 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917005036 conserved nucleotide sequence; KN400_R0198 663917005037 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 663917005038 TPR motif; other site 663917005039 Tetratricopeptide repeat; Region: TPR_12; pfam13424 663917005040 binding surface 663917005041 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 663917005042 binding surface 663917005043 TPR motif; other site 663917005044 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 663917005045 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 663917005046 Walker A/P-loop; other site 663917005047 ATP binding site [chemical binding]; other site 663917005048 Q-loop/lid; other site 663917005049 ABC transporter signature motif; other site 663917005050 Walker B; other site 663917005051 D-loop; other site 663917005052 H-loop/switch region; other site 663917005053 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 663917005054 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 663917005055 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 663917005056 active site 663917005057 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 663917005058 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 663917005059 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 663917005060 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 663917005061 Walker A/P-loop; other site 663917005062 ATP binding site [chemical binding]; other site 663917005063 Q-loop/lid; other site 663917005064 ABC transporter signature motif; other site 663917005065 Walker B; other site 663917005066 D-loop; other site 663917005067 H-loop/switch region; other site 663917005068 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 663917005069 putative carbohydrate binding site [chemical binding]; other site 663917005070 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 663917005071 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 663917005072 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 663917005073 putative active site [active] 663917005074 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 663917005075 putative ligand binding site [chemical binding]; other site 663917005076 putative catalytic site [active] 663917005077 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917005078 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 663917005079 Probable Catalytic site; other site 663917005080 conserved nucleotide sequence; KN400_R0199 663917005081 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 663917005082 active site 663917005083 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 663917005084 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 663917005085 active site 663917005086 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917005087 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 663917005088 hypothetical protein; Provisional; Region: PRK07208 663917005089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 663917005090 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 663917005091 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 663917005092 S-adenosylmethionine binding site [chemical binding]; other site 663917005093 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 663917005094 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 663917005095 putative active site [active] 663917005096 trRNA_3; KN400_R0200 663917005097 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 663917005098 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 663917005099 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 663917005100 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 663917005101 active site 663917005102 dimer interface [polypeptide binding]; other site 663917005103 motif 1; other site 663917005104 motif 2; other site 663917005105 motif 3; other site 663917005106 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 663917005107 anticodon binding site; other site 663917005108 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 663917005109 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 663917005110 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 663917005111 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 663917005112 conserved nucleotide sequence; KN400_R0201 663917005113 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 663917005114 23S rRNA binding site [nucleotide binding]; other site 663917005115 L21 binding site [polypeptide binding]; other site 663917005116 L13 binding site [polypeptide binding]; other site 663917005117 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 663917005118 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 663917005119 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 663917005120 dimer interface [polypeptide binding]; other site 663917005121 motif 1; other site 663917005122 active site 663917005123 motif 2; other site 663917005124 motif 3; other site 663917005125 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 663917005126 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 663917005127 putative tRNA-binding site [nucleotide binding]; other site 663917005128 B3/4 domain; Region: B3_4; pfam03483 663917005129 tRNA synthetase B5 domain; Region: B5; smart00874 663917005130 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 663917005131 dimer interface [polypeptide binding]; other site 663917005132 motif 1; other site 663917005133 motif 3; other site 663917005134 motif 2; other site 663917005135 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 663917005136 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 663917005137 IHF - DNA interface [nucleotide binding]; other site 663917005138 IHF dimer interface [polypeptide binding]; other site 663917005139 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 663917005140 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 663917005141 DNA binding residues [nucleotide binding] 663917005142 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 663917005143 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 663917005144 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 663917005145 S-adenosylmethionine binding site [chemical binding]; other site 663917005146 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 663917005147 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 663917005148 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 663917005149 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 663917005150 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 663917005151 DNA binding residues [nucleotide binding] 663917005152 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917005153 active site 663917005154 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 663917005155 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917005156 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 663917005157 substrate binding pocket [chemical binding]; other site 663917005158 membrane-bound complex binding site; other site 663917005159 hinge residues; other site 663917005160 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 663917005161 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917005162 putative active site [active] 663917005163 heme pocket [chemical binding]; other site 663917005164 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 663917005165 dimer interface [polypeptide binding]; other site 663917005166 phosphorylation site [posttranslational modification] 663917005167 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 663917005168 ATP binding site [chemical binding]; other site 663917005169 Mg2+ binding site [ion binding]; other site 663917005170 G-X-G motif; other site 663917005171 Response regulator receiver domain; Region: Response_reg; pfam00072 663917005172 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 663917005173 active site 663917005174 phosphorylation site [posttranslational modification] 663917005175 intermolecular recognition site; other site 663917005176 dimerization interface [polypeptide binding]; other site 663917005177 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 663917005178 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 663917005179 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 663917005180 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 663917005181 TSCPD domain; Region: TSCPD; pfam12637 663917005182 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 663917005183 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 663917005184 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 663917005185 Family description; Region: UvrD_C_2; pfam13538 663917005186 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 663917005187 AAA domain; Region: AAA_30; pfam13604 663917005188 Family description; Region: UvrD_C_2; pfam13538 663917005189 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 663917005190 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 663917005191 Walker A motif; other site 663917005192 ATP binding site [chemical binding]; other site 663917005193 Walker B motif; other site 663917005194 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 663917005195 putative active site [active] 663917005196 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 663917005197 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 663917005198 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 663917005199 putative catalytic site [active] 663917005200 putative phosphate binding site [ion binding]; other site 663917005201 active site 663917005202 metal binding site A [ion binding]; metal-binding site 663917005203 DNA binding site [nucleotide binding] 663917005204 putative AP binding site [nucleotide binding]; other site 663917005205 putative metal binding site B [ion binding]; other site 663917005206 conserved nucleotide sequence; KN400_R0202 663917005207 conserved nucleotide sequence; KN400_R0203 663917005208 Family description; Region: VCBS; pfam13517 663917005209 Family description; Region: VCBS; pfam13517 663917005210 Family description; Region: VCBS; pfam13517 663917005211 Family description; Region: VCBS; pfam13517 663917005212 FG-GAP repeat; Region: FG-GAP; pfam01839 663917005213 Family description; Region: VCBS; pfam13517 663917005214 conserved nucleotide sequence; KN400_R0204 663917005215 Transposase IS200 like; Region: Y1_Tnp; cl00848 663917005216 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 663917005217 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 663917005218 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 663917005219 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 663917005220 TPR repeat; Region: TPR_11; pfam13414 663917005221 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 663917005222 binding surface 663917005223 TPR motif; other site 663917005224 TPR repeat; Region: TPR_11; pfam13414 663917005225 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 663917005226 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 663917005227 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 663917005228 dinuclear metal binding motif [ion binding]; other site 663917005229 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 663917005230 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 663917005231 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 663917005232 active site 1 [active] 663917005233 dimer interface [polypeptide binding]; other site 663917005234 hexamer interface [polypeptide binding]; other site 663917005235 active site 2 [active] 663917005236 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 663917005237 dimerization interface [polypeptide binding]; other site 663917005238 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 663917005239 The Death Domain Superfamily of protein-protein interaction domains; Region: DD_superfamily; cl14633 663917005240 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 663917005241 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917005242 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917005243 metal binding site [ion binding]; metal-binding site 663917005244 active site 663917005245 I-site; other site 663917005246 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 663917005247 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 663917005248 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 663917005249 putative active site [active] 663917005250 heme pocket [chemical binding]; other site 663917005251 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 663917005252 putative active site [active] 663917005253 heme pocket [chemical binding]; other site 663917005254 GAF domain; Region: GAF; pfam01590 663917005255 GAF domain; Region: GAF_2; pfam13185 663917005256 PAS domain S-box; Region: sensory_box; TIGR00229 663917005257 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 663917005258 putative active site [active] 663917005259 heme pocket [chemical binding]; other site 663917005260 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 663917005261 dimer interface [polypeptide binding]; other site 663917005262 phosphorylation site [posttranslational modification] 663917005263 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 663917005264 ATP binding site [chemical binding]; other site 663917005265 Mg2+ binding site [ion binding]; other site 663917005266 G-X-G motif; other site 663917005267 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917005268 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 663917005269 active site 663917005270 phosphorylation site [posttranslational modification] 663917005271 intermolecular recognition site; other site 663917005272 dimerization interface [polypeptide binding]; other site 663917005273 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 663917005274 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 663917005275 Mechanosensitive ion channel; Region: MS_channel; pfam00924 663917005276 radical SAM/SPASM domain protein, ACGX system; Region: rSAM_ACGX; TIGR04340 663917005277 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 663917005278 FeS/SAM binding site; other site 663917005279 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 663917005280 Transglycosylase; Region: Transgly; pfam00912 663917005281 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 663917005282 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 663917005283 Domain of unknown function DUF77; Region: DUF77; pfam01910 663917005284 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 663917005285 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 663917005286 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 663917005287 conserved nucleotide sequence; KN400_R0205 663917005288 M48 family peptidase; Provisional; Region: PRK03001 663917005289 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 663917005290 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 663917005291 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 663917005292 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 663917005293 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 663917005294 RibD C-terminal domain; Region: RibD_C; cl17279 663917005295 CAAX protease self-immunity; Region: Abi; pfam02517 663917005296 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 663917005297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 663917005298 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 663917005299 NAD(P) binding site [chemical binding]; other site 663917005300 active site 663917005301 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 663917005302 homodimer interface [polypeptide binding]; other site 663917005303 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 663917005304 Walker A motif; other site 663917005305 ATP binding site [chemical binding]; other site 663917005306 hydroxycobalamin binding site [chemical binding]; other site 663917005307 Walker B motif; other site 663917005308 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 663917005309 B12 binding site [chemical binding]; other site 663917005310 cobalt ligand [ion binding]; other site 663917005311 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 663917005312 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 663917005313 Walker A; other site 663917005314 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 663917005315 DHH family; Region: DHH; pfam01368 663917005316 FOG: CBS domain [General function prediction only]; Region: COG0517 663917005317 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 663917005318 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 663917005319 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 663917005320 active site 663917005321 NTP binding site [chemical binding]; other site 663917005322 metal binding triad [ion binding]; metal-binding site 663917005323 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 663917005324 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 663917005325 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 663917005326 inhibitor-cofactor binding pocket; inhibition site 663917005327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917005328 catalytic residue [active] 663917005329 AAA domain; Region: AAA_26; pfam13500 663917005330 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 663917005331 biotin synthase; Region: bioB; TIGR00433 663917005332 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 663917005333 FeS/SAM binding site; other site 663917005334 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 663917005335 ribosome maturation protein RimP; Reviewed; Region: PRK00092 663917005336 Sm and related proteins; Region: Sm_like; cl00259 663917005337 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 663917005338 putative oligomer interface [polypeptide binding]; other site 663917005339 putative RNA binding site [nucleotide binding]; other site 663917005340 NusA N-terminal domain; Region: NusA_N; pfam08529 663917005341 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 663917005342 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 663917005343 RNA binding site [nucleotide binding]; other site 663917005344 homodimer interface [polypeptide binding]; other site 663917005345 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 663917005346 G-X-X-G motif; other site 663917005347 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 663917005348 G-X-X-G motif; other site 663917005349 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 663917005350 putative RNA binding cleft [nucleotide binding]; other site 663917005351 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 663917005352 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 663917005353 translation initiation factor IF-2; Validated; Region: infB; PRK05306 663917005354 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 663917005355 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 663917005356 G1 box; other site 663917005357 putative GEF interaction site [polypeptide binding]; other site 663917005358 GTP/Mg2+ binding site [chemical binding]; other site 663917005359 Switch I region; other site 663917005360 G2 box; other site 663917005361 G3 box; other site 663917005362 Switch II region; other site 663917005363 G4 box; other site 663917005364 G5 box; other site 663917005365 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 663917005366 Translation-initiation factor 2; Region: IF-2; pfam11987 663917005367 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 663917005368 ribosome-binding factor A; Provisional; Region: PRK13815 663917005369 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 663917005370 DHH family; Region: DHH; pfam01368 663917005371 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 663917005372 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 663917005373 RNA binding site [nucleotide binding]; other site 663917005374 active site 663917005375 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 663917005376 16S/18S rRNA binding site [nucleotide binding]; other site 663917005377 S13e-L30e interaction site [polypeptide binding]; other site 663917005378 25S rRNA binding site [nucleotide binding]; other site 663917005379 conserved nucleotide sequence; KN400_R0206 663917005380 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 663917005381 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 663917005382 RNase E interface [polypeptide binding]; other site 663917005383 trimer interface [polypeptide binding]; other site 663917005384 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 663917005385 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 663917005386 RNase E interface [polypeptide binding]; other site 663917005387 trimer interface [polypeptide binding]; other site 663917005388 active site 663917005389 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 663917005390 putative nucleic acid binding region [nucleotide binding]; other site 663917005391 G-X-X-G motif; other site 663917005392 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 663917005393 RNA binding site [nucleotide binding]; other site 663917005394 domain interface; other site 663917005395 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 663917005396 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 663917005397 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 663917005398 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 663917005399 trimer interface [polypeptide binding]; other site 663917005400 active site 663917005401 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 663917005402 conserved nucleotide sequence; KN400_R0207 663917005403 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 663917005404 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 663917005405 putative phosphate acyltransferase; Provisional; Region: PRK05331 663917005406 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 663917005407 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 663917005408 dimer interface [polypeptide binding]; other site 663917005409 active site 663917005410 CoA binding pocket [chemical binding]; other site 663917005411 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 663917005412 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 663917005413 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 663917005414 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 663917005415 NAD(P) binding site [chemical binding]; other site 663917005416 homotetramer interface [polypeptide binding]; other site 663917005417 homodimer interface [polypeptide binding]; other site 663917005418 active site 663917005419 acyl carrier protein; Provisional; Region: acpP; PRK00982 663917005420 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 663917005421 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 663917005422 dimer interface [polypeptide binding]; other site 663917005423 active site 663917005424 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 663917005425 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 663917005426 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 663917005427 dimer interface [polypeptide binding]; other site 663917005428 active site 663917005429 glycine-pyridoxal phosphate binding site [chemical binding]; other site 663917005430 folate binding site [chemical binding]; other site 663917005431 Outer membrane efflux protein; Region: OEP; pfam02321 663917005432 Outer membrane efflux protein; Region: OEP; pfam02321 663917005433 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 663917005434 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917005435 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917005436 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 663917005437 Protein export membrane protein; Region: SecD_SecF; cl14618 663917005438 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 663917005439 catalytic core [active] 663917005440 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 663917005441 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 663917005442 endonuclease III; Region: ENDO3c; smart00478 663917005443 minor groove reading motif; other site 663917005444 helix-hairpin-helix signature motif; other site 663917005445 substrate binding pocket [chemical binding]; other site 663917005446 active site 663917005447 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 663917005448 CoA binding domain; Region: CoA_binding_2; pfam13380 663917005449 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 663917005450 DNA polymerase IV; Reviewed; Region: PRK03103 663917005451 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 663917005452 active site 663917005453 DNA binding site [nucleotide binding] 663917005454 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 663917005455 LexA repressor; Validated; Region: PRK00215 663917005456 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 663917005457 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 663917005458 Catalytic site [active] 663917005459 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 663917005460 Response regulator receiver domain; Region: Response_reg; pfam00072 663917005461 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 663917005462 active site 663917005463 phosphorylation site [posttranslational modification] 663917005464 intermolecular recognition site; other site 663917005465 dimerization interface [polypeptide binding]; other site 663917005466 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 663917005467 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 663917005468 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 663917005469 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 663917005470 Cysteine-rich domain; Region: CCG; pfam02754 663917005471 Cysteine-rich domain; Region: CCG; pfam02754 663917005472 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 663917005473 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 663917005474 L-lactate permease; Region: Lactate_perm; cl00701 663917005475 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 663917005476 L-lactate permease; Region: Lactate_perm; cl00701 663917005477 FAD binding domain; Region: FAD_binding_4; pfam01565 663917005478 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 663917005479 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 663917005480 Cysteine-rich domain; Region: CCG; pfam02754 663917005481 Cysteine-rich domain; Region: CCG; pfam02754 663917005482 Transcriptional regulators [Transcription]; Region: FadR; COG2186 663917005483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 663917005484 DNA-binding site [nucleotide binding]; DNA binding site 663917005485 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 663917005486 Preprotein translocase SecG subunit; Region: SecG; pfam03840 663917005487 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 663917005488 triosephosphate isomerase; Provisional; Region: PRK14567 663917005489 substrate binding site [chemical binding]; other site 663917005490 dimer interface [polypeptide binding]; other site 663917005491 catalytic triad [active] 663917005492 Phosphoglycerate kinase; Region: PGK; pfam00162 663917005493 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 663917005494 substrate binding site [chemical binding]; other site 663917005495 hinge regions; other site 663917005496 ADP binding site [chemical binding]; other site 663917005497 catalytic site [active] 663917005498 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 663917005499 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 663917005500 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 663917005501 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 663917005502 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 663917005503 dimerization interface [polypeptide binding]; other site 663917005504 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 663917005505 putative active site [active] 663917005506 heme pocket [chemical binding]; other site 663917005507 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 663917005508 dimer interface [polypeptide binding]; other site 663917005509 phosphorylation site [posttranslational modification] 663917005510 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 663917005511 ATP binding site [chemical binding]; other site 663917005512 Mg2+ binding site [ion binding]; other site 663917005513 G-X-G motif; other site 663917005514 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 663917005515 adenylosuccinate lyase; Provisional; Region: PRK07492 663917005516 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 663917005517 tetramer interface [polypeptide binding]; other site 663917005518 active site 663917005519 Mechanosensitive ion channel; Region: MS_channel; pfam00924 663917005520 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 663917005521 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 663917005522 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 663917005523 dimerization interface [polypeptide binding]; other site 663917005524 ATP binding site [chemical binding]; other site 663917005525 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 663917005526 dimerization interface [polypeptide binding]; other site 663917005527 ATP binding site [chemical binding]; other site 663917005528 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 663917005529 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 663917005530 conserved cys residue [active] 663917005531 amidophosphoribosyltransferase; Provisional; Region: PRK09123 663917005532 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 663917005533 active site 663917005534 tetramer interface [polypeptide binding]; other site 663917005535 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917005536 active site 663917005537 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 663917005538 active site 663917005539 Flagellin N-methylase; Region: FliB; cl00497 663917005540 Rrf2 family protein; Region: rrf2_super; TIGR00738 663917005541 Transcriptional regulator; Region: Rrf2; pfam02082 663917005542 conserved palindrome; KN400_R0208 663917005543 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 663917005544 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 663917005545 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 663917005546 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917005547 diiron binding motif [ion binding]; other site 663917005548 Response regulator receiver domain; Region: Response_reg; pfam00072 663917005549 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 663917005550 active site 663917005551 phosphorylation site [posttranslational modification] 663917005552 intermolecular recognition site; other site 663917005553 dimerization interface [polypeptide binding]; other site 663917005554 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917005555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917005556 metal binding site [ion binding]; metal-binding site 663917005557 active site 663917005558 I-site; other site 663917005559 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 663917005560 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917005561 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917005562 ABC transporter; Region: ABC_tran_2; pfam12848 663917005563 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917005564 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917005565 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 663917005566 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 663917005567 intrachain domain interface; other site 663917005568 interchain domain interface [polypeptide binding]; other site 663917005569 heme bH binding site [chemical binding]; other site 663917005570 heme bL binding site [chemical binding]; other site 663917005571 Qo binding site; other site 663917005572 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; cl00193 663917005573 interchain domain interface [polypeptide binding]; other site 663917005574 intrachain domain interface; other site 663917005575 Qi binding site; other site 663917005576 Qo binding site; other site 663917005577 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 663917005578 iron-sulfur cluster [ion binding]; other site 663917005579 [2Fe-2S] cluster binding site [ion binding]; other site 663917005580 conserved nucleotide sequence; KN400_R0076 663917005581 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 663917005582 AMP binding site [chemical binding]; other site 663917005583 metal binding site [ion binding]; metal-binding site 663917005584 active site 663917005585 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917005586 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 663917005587 active site 663917005588 phosphorylation site [posttranslational modification] 663917005589 intermolecular recognition site; other site 663917005590 dimerization interface [polypeptide binding]; other site 663917005591 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 663917005592 Walker A motif; other site 663917005593 ATP binding site [chemical binding]; other site 663917005594 Walker B motif; other site 663917005595 arginine finger; other site 663917005596 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917005597 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 663917005598 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 663917005599 active site 663917005600 phosphorylation site [posttranslational modification] 663917005601 intermolecular recognition site; other site 663917005602 dimerization interface [polypeptide binding]; other site 663917005603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917005604 Zn2+ binding site [ion binding]; other site 663917005605 Mg2+ binding site [ion binding]; other site 663917005606 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917005607 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 663917005608 active site 663917005609 phosphorylation site [posttranslational modification] 663917005610 intermolecular recognition site; other site 663917005611 dimerization interface [polypeptide binding]; other site 663917005612 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 663917005613 PAS domain; Region: PAS_9; pfam13426 663917005614 putative active site [active] 663917005615 heme pocket [chemical binding]; other site 663917005616 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917005617 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917005618 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 663917005619 dimer interface [polypeptide binding]; other site 663917005620 phosphorylation site [posttranslational modification] 663917005621 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 663917005622 ATP binding site [chemical binding]; other site 663917005623 Mg2+ binding site [ion binding]; other site 663917005624 G-X-G motif; other site 663917005625 Response regulator receiver domain; Region: Response_reg; pfam00072 663917005626 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 663917005627 active site 663917005628 phosphorylation site [posttranslational modification] 663917005629 intermolecular recognition site; other site 663917005630 dimerization interface [polypeptide binding]; other site 663917005631 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917005632 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 663917005633 active site 663917005634 phosphorylation site [posttranslational modification] 663917005635 intermolecular recognition site; other site 663917005636 dimerization interface [polypeptide binding]; other site 663917005637 PAS domain S-box; Region: sensory_box; TIGR00229 663917005638 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 663917005639 putative active site [active] 663917005640 heme pocket [chemical binding]; other site 663917005641 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917005642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917005643 metal binding site [ion binding]; metal-binding site 663917005644 active site 663917005645 I-site; other site 663917005646 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 663917005647 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 663917005648 Competence protein; Region: Competence; pfam03772 663917005649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 663917005650 Response regulator receiver domain; Region: Response_reg; pfam00072 663917005651 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 663917005652 active site 663917005653 phosphorylation site [posttranslational modification] 663917005654 intermolecular recognition site; other site 663917005655 dimerization interface [polypeptide binding]; other site 663917005656 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917005657 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917005658 metal binding site [ion binding]; metal-binding site 663917005659 active site 663917005660 I-site; other site 663917005661 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 663917005662 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 663917005663 dimer interface [polypeptide binding]; other site 663917005664 motif 1; other site 663917005665 active site 663917005666 motif 2; other site 663917005667 motif 3; other site 663917005668 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 663917005669 anticodon binding site; other site 663917005670 conserved nucleotide sequence; KN400_R0209 663917005671 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 663917005672 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 663917005673 substrate binding site [chemical binding]; other site 663917005674 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 663917005675 substrate binding site [chemical binding]; other site 663917005676 ligand binding site [chemical binding]; other site 663917005677 conserved nucleotide sequence; KN400_R0210 663917005678 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 663917005679 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 663917005680 Domain of unknown function (DUF309); Region: DUF309; pfam03745 663917005681 Rhomboid family; Region: Rhomboid; cl11446 663917005682 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917005683 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917005684 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 663917005685 Response regulator receiver domain; Region: Response_reg; pfam00072 663917005686 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 663917005687 active site 663917005688 phosphorylation site [posttranslational modification] 663917005689 intermolecular recognition site; other site 663917005690 dimerization interface [polypeptide binding]; other site 663917005691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917005692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917005693 metal binding site [ion binding]; metal-binding site 663917005694 active site 663917005695 I-site; other site 663917005696 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 663917005697 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 663917005698 putative ligand binding site [chemical binding]; other site 663917005699 putative NAD binding site [chemical binding]; other site 663917005700 catalytic site [active] 663917005701 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 663917005702 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 663917005703 acyl-activating enzyme (AAE) consensus motif; other site 663917005704 putative AMP binding site [chemical binding]; other site 663917005705 putative active site [active] 663917005706 putative CoA binding site [chemical binding]; other site 663917005707 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 663917005708 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 663917005709 putative acyl-acceptor binding pocket; other site 663917005710 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 663917005711 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 663917005712 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 663917005713 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 663917005714 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 663917005715 motif II; other site 663917005716 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 663917005717 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 663917005718 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 663917005719 AAA domain; Region: AAA_26; pfam13500 663917005720 DRTGG domain; Region: DRTGG; pfam07085 663917005721 Protein of unknown function (DUF327); Region: DUF327; pfam03885 663917005722 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 663917005723 hypothetical protein; Reviewed; Region: PRK09588 663917005724 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917005725 Zn2+ binding site [ion binding]; other site 663917005726 Mg2+ binding site [ion binding]; other site 663917005727 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 663917005728 catalytic motif [active] 663917005729 Zn binding site [ion binding]; other site 663917005730 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 663917005731 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 663917005732 ATP cone domain; Region: ATP-cone; pfam03477 663917005733 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 663917005734 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 663917005735 catalytic motif [active] 663917005736 Zn binding site [ion binding]; other site 663917005737 RibD C-terminal domain; Region: RibD_C; cl17279 663917005738 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 663917005739 Lumazine binding domain; Region: Lum_binding; pfam00677 663917005740 Lumazine binding domain; Region: Lum_binding; pfam00677 663917005741 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 663917005742 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 663917005743 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 663917005744 dimerization interface [polypeptide binding]; other site 663917005745 active site 663917005746 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 663917005747 homopentamer interface [polypeptide binding]; other site 663917005748 active site 663917005749 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 663917005750 putative RNA binding site [nucleotide binding]; other site 663917005751 homoserine dehydrogenase; Provisional; Region: PRK06349 663917005752 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 663917005753 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 663917005754 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 663917005755 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 663917005756 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 663917005757 motif II; other site 663917005758 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 663917005759 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 663917005760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917005761 catalytic residue [active] 663917005762 MoxR-like ATPases [General function prediction only]; Region: COG0714 663917005763 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 663917005764 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 663917005765 Protein of unknown function DUF58; Region: DUF58; pfam01882 663917005766 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 663917005767 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 663917005768 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 663917005769 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 663917005770 TPR motif; other site 663917005771 binding surface 663917005772 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 663917005773 TPR motif; other site 663917005774 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917005775 binding surface 663917005776 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 663917005777 binding surface 663917005778 Tetratricopeptide repeat; Region: TPR_12; pfam13424 663917005779 TPR motif; other site 663917005780 TonB C terminal; Region: TonB_2; pfam13103 663917005781 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 663917005782 Malic enzyme, N-terminal domain; Region: malic; pfam00390 663917005783 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 663917005784 putative NAD(P) binding site [chemical binding]; other site 663917005785 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 663917005786 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 663917005787 nucleotide binding site/active site [active] 663917005788 HIT family signature motif; other site 663917005789 catalytic residue [active] 663917005790 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 663917005791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 663917005792 nucleotide binding site [chemical binding]; other site 663917005793 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 663917005794 phosphofructokinase; Region: PFK_mixed; TIGR02483 663917005795 active site 663917005796 ADP/pyrophosphate binding site [chemical binding]; other site 663917005797 dimerization interface [polypeptide binding]; other site 663917005798 allosteric effector site; other site 663917005799 fructose-1,6-bisphosphate binding site; other site 663917005800 Sec8 exocyst complex component specific domain; Region: Sec8_exocyst; pfam04048 663917005801 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917005802 GAF domain; Region: GAF; pfam01590 663917005803 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917005804 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917005805 dimer interface [polypeptide binding]; other site 663917005806 putative CheW interface [polypeptide binding]; other site 663917005807 conserved nucleotide sequence; KN400_R0211 663917005808 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 663917005809 oligomerization interface [polypeptide binding]; other site 663917005810 active site 663917005811 metal binding site [ion binding]; metal-binding site 663917005812 pantoate--beta-alanine ligase; Region: panC; TIGR00018 663917005813 Pantoate-beta-alanine ligase; Region: PanC; cd00560 663917005814 active site 663917005815 ATP-binding site [chemical binding]; other site 663917005816 pantoate-binding site; other site 663917005817 HXXH motif; other site 663917005818 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 663917005819 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917005820 catalytic residue [active] 663917005821 chlorohydrolase; Provisional; Region: PRK08418 663917005822 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_D; cd01312 663917005823 active site 663917005824 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 663917005825 SmpB-tmRNA interface; other site 663917005826 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 663917005827 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 663917005828 Active Sites [active] 663917005829 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 663917005830 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 663917005831 Active Sites [active] 663917005832 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 663917005833 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 663917005834 CysD dimerization site [polypeptide binding]; other site 663917005835 G1 box; other site 663917005836 putative GEF interaction site [polypeptide binding]; other site 663917005837 GTP/Mg2+ binding site [chemical binding]; other site 663917005838 Switch I region; other site 663917005839 G2 box; other site 663917005840 G3 box; other site 663917005841 Switch II region; other site 663917005842 G4 box; other site 663917005843 G5 box; other site 663917005844 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 663917005845 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 663917005846 ParG; Region: ParG; pfam09274 663917005847 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 663917005848 active site 663917005849 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 663917005850 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 663917005851 FeS/SAM binding site; other site 663917005852 Creatinine amidohydrolase; Region: Creatininase; pfam02633 663917005853 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 663917005854 Mechanosensitive ion channel; Region: MS_channel; pfam00924 663917005855 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 663917005856 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 663917005857 active site 663917005858 metal binding site [ion binding]; metal-binding site 663917005859 DNA binding site [nucleotide binding] 663917005860 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 663917005861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917005862 Walker A/P-loop; other site 663917005863 ATP binding site [chemical binding]; other site 663917005864 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 663917005865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917005866 ABC transporter signature motif; other site 663917005867 Walker B; other site 663917005868 D-loop; other site 663917005869 H-loop/switch region; other site 663917005870 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 663917005871 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 663917005872 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 663917005873 FeS/SAM binding site; other site 663917005874 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 663917005875 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917005876 acyl-activating enzyme (AAE) consensus motif; other site 663917005877 AMP binding site [chemical binding]; other site 663917005878 active site 663917005879 CoA binding site [chemical binding]; other site 663917005880 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 663917005881 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 663917005882 Walker A/P-loop; other site 663917005883 ATP binding site [chemical binding]; other site 663917005884 Q-loop/lid; other site 663917005885 ABC transporter signature motif; other site 663917005886 Walker B; other site 663917005887 D-loop; other site 663917005888 H-loop/switch region; other site 663917005889 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 663917005890 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 663917005891 Walker A/P-loop; other site 663917005892 ATP binding site [chemical binding]; other site 663917005893 Q-loop/lid; other site 663917005894 ABC transporter signature motif; other site 663917005895 Walker B; other site 663917005896 D-loop; other site 663917005897 H-loop/switch region; other site 663917005898 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 663917005899 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 663917005900 TM-ABC transporter signature motif; other site 663917005901 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 663917005902 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 663917005903 TM-ABC transporter signature motif; other site 663917005904 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 663917005905 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 663917005906 putative ligand binding site [chemical binding]; other site 663917005907 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 663917005908 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 663917005909 putative ligand binding site [chemical binding]; other site 663917005910 ACT domain-containing protein [General function prediction only]; Region: COG4747 663917005911 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 663917005912 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 663917005913 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917005914 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 663917005915 acyl-activating enzyme (AAE) consensus motif; other site 663917005916 AMP binding site [chemical binding]; other site 663917005917 active site 663917005918 CoA binding site [chemical binding]; other site 663917005919 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 663917005920 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 663917005921 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 663917005922 dimer interface [polypeptide binding]; other site 663917005923 PYR/PP interface [polypeptide binding]; other site 663917005924 TPP binding site [chemical binding]; other site 663917005925 substrate binding site [chemical binding]; other site 663917005926 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 663917005927 TPP-binding site; other site 663917005928 conserved nucleotide sequence; KN400_R0212 663917005929 exopolyphosphatase; Region: exo_poly_only; TIGR03706 663917005930 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 663917005931 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 663917005932 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 663917005933 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 663917005934 PhoU domain; Region: PhoU; pfam01895 663917005935 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 663917005936 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 663917005937 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917005938 ligand binding site [chemical binding]; other site 663917005939 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 663917005940 IHF dimer interface [polypeptide binding]; other site 663917005941 IHF - DNA interface [nucleotide binding]; other site 663917005942 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 663917005943 TRAM domain; Region: TRAM; pfam01938 663917005944 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 663917005945 S-adenosylmethionine binding site [chemical binding]; other site 663917005946 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 663917005947 rRNA binding site [nucleotide binding]; other site 663917005948 predicted 30S ribosome binding site; other site 663917005949 elongation factor P; Validated; Region: PRK00529 663917005950 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 663917005951 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 663917005952 RNA binding site [nucleotide binding]; other site 663917005953 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 663917005954 RNA binding site [nucleotide binding]; other site 663917005955 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 663917005956 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 663917005957 motif 1; other site 663917005958 dimer interface [polypeptide binding]; other site 663917005959 active site 663917005960 motif 2; other site 663917005961 motif 3; other site 663917005962 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 663917005963 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 663917005964 FeS/SAM binding site; other site 663917005965 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 663917005966 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 663917005967 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 663917005968 heterodimer interface [polypeptide binding]; other site 663917005969 active site 663917005970 FMN binding site [chemical binding]; other site 663917005971 homodimer interface [polypeptide binding]; other site 663917005972 substrate binding site [chemical binding]; other site 663917005973 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 663917005974 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 663917005975 FAD binding pocket [chemical binding]; other site 663917005976 FAD binding motif [chemical binding]; other site 663917005977 phosphate binding motif [ion binding]; other site 663917005978 beta-alpha-beta structure motif; other site 663917005979 NAD binding pocket [chemical binding]; other site 663917005980 Iron coordination center [ion binding]; other site 663917005981 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 663917005982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 663917005983 Coenzyme A binding pocket [chemical binding]; other site 663917005984 conserved nucleotide sequence; KN400_R0213 663917005985 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 663917005986 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 663917005987 dimerization interface [polypeptide binding]; other site 663917005988 putative ATP binding site [chemical binding]; other site 663917005989 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 663917005990 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 663917005991 active site 663917005992 substrate binding site [chemical binding]; other site 663917005993 cosubstrate binding site; other site 663917005994 catalytic site [active] 663917005995 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917005996 heme-binding residues [chemical binding]; other site 663917005997 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 663917005998 Cytochrome c; Region: Cytochrom_C; pfam00034 663917005999 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 663917006000 TPR repeat; Region: TPR_11; pfam13414 663917006001 binding surface 663917006002 TPR motif; other site 663917006003 TPR repeat; Region: TPR_11; pfam13414 663917006004 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 663917006005 TPR motif; other site 663917006006 binding surface 663917006007 TPR repeat; Region: TPR_11; pfam13414 663917006008 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 663917006009 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 663917006010 HSP70 interaction site [polypeptide binding]; other site 663917006011 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 663917006012 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 663917006013 TPP-binding site; other site 663917006014 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 663917006015 PYR/PP interface [polypeptide binding]; other site 663917006016 dimer interface [polypeptide binding]; other site 663917006017 TPP binding site [chemical binding]; other site 663917006018 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917006019 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 663917006020 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 663917006021 substrate binding pocket [chemical binding]; other site 663917006022 chain length determination region; other site 663917006023 substrate-Mg2+ binding site; other site 663917006024 catalytic residues [active] 663917006025 aspartate-rich region 1; other site 663917006026 active site lid residues [active] 663917006027 aspartate-rich region 2; other site 663917006028 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14066 663917006029 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 663917006030 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 663917006031 generic binding surface II; other site 663917006032 generic binding surface I; other site 663917006033 AAA domain; Region: AAA_31; pfam13614 663917006034 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 663917006035 P-loop; other site 663917006036 Magnesium ion binding site [ion binding]; other site 663917006037 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 663917006038 Magnesium ion binding site [ion binding]; other site 663917006039 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 663917006040 NodB motif; other site 663917006041 putative active site [active] 663917006042 putative catalytic site [active] 663917006043 Zn binding site [ion binding]; other site 663917006044 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 663917006045 dockerin binding interface; other site 663917006046 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 663917006047 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 663917006048 C-terminal peptidase (prc); Region: prc; TIGR00225 663917006049 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 663917006050 protein binding site [polypeptide binding]; other site 663917006051 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 663917006052 Catalytic dyad [active] 663917006053 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 663917006054 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 663917006055 Peptidase family M23; Region: Peptidase_M23; pfam01551 663917006056 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 663917006057 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 663917006058 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 663917006059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917006060 Walker A/P-loop; other site 663917006061 ATP binding site [chemical binding]; other site 663917006062 Q-loop/lid; other site 663917006063 ABC transporter signature motif; other site 663917006064 Walker B; other site 663917006065 D-loop; other site 663917006066 H-loop/switch region; other site 663917006067 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 663917006068 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 663917006069 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 663917006070 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 663917006071 TPR repeat; Region: TPR_11; pfam13414 663917006072 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 663917006073 binding surface 663917006074 TPR motif; other site 663917006075 TPR repeat; Region: TPR_11; pfam13414 663917006076 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 663917006077 Secretin and TonB N terminus short domain; Region: STN; smart00965 663917006078 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 663917006079 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 663917006080 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 663917006081 dockerin binding interface; other site 663917006082 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 663917006083 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 663917006084 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917006085 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 663917006086 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 663917006087 Walker A motif; other site 663917006088 ATP binding site [chemical binding]; other site 663917006089 Walker B motif; other site 663917006090 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 663917006091 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 663917006092 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 663917006093 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917006094 Uncharacterized conserved protein [Function unknown]; Region: COG3391 663917006095 NHL repeat; Region: NHL; pfam01436 663917006096 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 663917006097 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 663917006098 Ligand binding site; other site 663917006099 Putative Catalytic site; other site 663917006100 DXD motif; other site 663917006101 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 663917006102 Found in ATP-dependent protease La (LON); Region: LON; smart00464 663917006103 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 663917006104 Walker A motif; other site 663917006105 ATP binding site [chemical binding]; other site 663917006106 Walker B motif; other site 663917006107 arginine finger; other site 663917006108 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 663917006109 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 663917006110 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 663917006111 oligomer interface [polypeptide binding]; other site 663917006112 active site residues [active] 663917006113 trigger factor; Provisional; Region: tig; PRK01490 663917006114 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 663917006115 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 663917006116 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 663917006117 active site 663917006118 dimerization interface [polypeptide binding]; other site 663917006119 ribonuclease PH; Reviewed; Region: rph; PRK00173 663917006120 Ribonuclease PH; Region: RNase_PH_bact; cd11362 663917006121 hexamer interface [polypeptide binding]; other site 663917006122 active site 663917006123 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 663917006124 DHH family; Region: DHH; pfam01368 663917006125 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 663917006126 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 663917006127 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 663917006128 active site 663917006129 catalytic residues [active] 663917006130 metal binding site [ion binding]; metal-binding site 663917006131 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 663917006132 aspartate kinase; Reviewed; Region: PRK06635 663917006133 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 663917006134 putative nucleotide binding site [chemical binding]; other site 663917006135 putative catalytic residues [active] 663917006136 putative Mg ion binding site [ion binding]; other site 663917006137 putative aspartate binding site [chemical binding]; other site 663917006138 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 663917006139 putative allosteric regulatory site; other site 663917006140 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 663917006141 putative allosteric regulatory residue; other site 663917006142 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 663917006143 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 663917006144 Uncharacterized conserved protein [Function unknown]; Region: COG0062 663917006145 putative carbohydrate kinase; Provisional; Region: PRK10565 663917006146 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 663917006147 putative substrate binding site [chemical binding]; other site 663917006148 putative ATP binding site [chemical binding]; other site 663917006149 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14656 663917006150 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 663917006151 active site 663917006152 hydrophilic channel; other site 663917006153 dimerization interface [polypeptide binding]; other site 663917006154 catalytic residues [active] 663917006155 active site lid [active] 663917006156 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 663917006157 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 663917006158 active site 663917006159 substrate binding site [chemical binding]; other site 663917006160 metal binding site [ion binding]; metal-binding site 663917006161 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 663917006162 dihydropteroate synthase; Region: DHPS; TIGR01496 663917006163 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 663917006164 substrate binding pocket [chemical binding]; other site 663917006165 dimer interface [polypeptide binding]; other site 663917006166 inhibitor binding site; inhibition site 663917006167 FtsH Extracellular; Region: FtsH_ext; pfam06480 663917006168 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 663917006169 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 663917006170 Walker A motif; other site 663917006171 ATP binding site [chemical binding]; other site 663917006172 Walker B motif; other site 663917006173 arginine finger; other site 663917006174 Peptidase family M41; Region: Peptidase_M41; pfam01434 663917006175 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 663917006176 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 663917006177 TilS substrate C-terminal domain; Region: TilS_C; smart00977 663917006178 Sporulation related domain; Region: SPOR; pfam05036 663917006179 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 663917006180 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 663917006181 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 663917006182 active site 663917006183 HIGH motif; other site 663917006184 KMSK motif region; other site 663917006185 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 663917006186 tRNA binding surface [nucleotide binding]; other site 663917006187 anticodon binding site; other site 663917006188 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 663917006189 Septum formation initiator; Region: DivIC; pfam04977 663917006190 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 663917006191 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 663917006192 NAD binding site [chemical binding]; other site 663917006193 putative substrate binding site 2 [chemical binding]; other site 663917006194 putative substrate binding site 1 [chemical binding]; other site 663917006195 active site 663917006196 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 663917006197 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 663917006198 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 663917006199 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 663917006200 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 663917006201 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 663917006202 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 663917006203 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 663917006204 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 663917006205 active site 663917006206 Int/Topo IB signature motif; other site 663917006207 PII uridylyl-transferase; Provisional; Region: PRK05092 663917006208 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 663917006209 metal binding triad; other site 663917006210 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 663917006211 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 663917006212 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 663917006213 AMIN domain; Region: AMIN; pfam11741 663917006214 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 663917006215 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 663917006216 active site 663917006217 metal binding site [ion binding]; metal-binding site 663917006218 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 663917006219 MutS domain I; Region: MutS_I; pfam01624 663917006220 MutS domain II; Region: MutS_II; pfam05188 663917006221 MutS domain III; Region: MutS_III; pfam05192 663917006222 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 663917006223 Walker A/P-loop; other site 663917006224 ATP binding site [chemical binding]; other site 663917006225 Q-loop/lid; other site 663917006226 ABC transporter signature motif; other site 663917006227 Walker B; other site 663917006228 D-loop; other site 663917006229 H-loop/switch region; other site 663917006230 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 663917006231 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 663917006232 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 663917006233 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 663917006234 N-acetyl-D-glucosamine binding site [chemical binding]; other site 663917006235 catalytic residue [active] 663917006236 conserved nucleotide sequence; KN400_R0214 663917006237 L-aspartate oxidase; Provisional; Region: PRK09077 663917006238 L-aspartate oxidase; Provisional; Region: PRK06175 663917006239 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 663917006240 Chorismate mutase type II; Region: CM_2; pfam01817 663917006241 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 663917006242 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 663917006243 putative ligand binding pocket/active site [active] 663917006244 putative metal binding site [ion binding]; other site 663917006245 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 663917006246 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 663917006247 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 663917006248 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 663917006249 active site 663917006250 HIGH motif; other site 663917006251 dimer interface [polypeptide binding]; other site 663917006252 KMSKS motif; other site 663917006253 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_1; cd06158 663917006254 Peptidase family M50; Region: Peptidase_M50; pfam02163 663917006255 active site 663917006256 putative substrate binding region [chemical binding]; other site 663917006257 conserved nucleotide sequence; KN400_R0215 663917006258 glutamine synthetase, type I; Region: GlnA; TIGR00653 663917006259 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 663917006260 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 663917006261 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 663917006262 Nitrogen regulatory protein P-II; Region: P-II; smart00938 663917006263 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 663917006264 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 663917006265 Peptidase family M23; Region: Peptidase_M23; pfam01551 663917006266 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 663917006267 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 663917006268 ATP binding site [chemical binding]; other site 663917006269 putative Mg++ binding site [ion binding]; other site 663917006270 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 663917006271 nucleotide binding region [chemical binding]; other site 663917006272 ATP-binding site [chemical binding]; other site 663917006273 Helicase associated domain (HA2); Region: HA2; pfam04408 663917006274 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 663917006275 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 663917006276 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 663917006277 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 663917006278 motif II; other site 663917006279 PAP2_like_5 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_5; cd03394 663917006280 active site 663917006281 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 663917006282 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 663917006283 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 663917006284 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 663917006285 SLBB domain; Region: SLBB; pfam10531 663917006286 SLBB domain; Region: SLBB; pfam10531 663917006287 SLBB domain; Region: SLBB; pfam10531 663917006288 SLBB domain; Region: SLBB; pfam10531 663917006289 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 663917006290 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 663917006291 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 663917006292 Beta-Casp domain; Region: Beta-Casp; smart01027 663917006293 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 663917006294 IPT/TIG domain; Region: TIG; pfam01833 663917006295 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 663917006296 putative transposase OrfB; Reviewed; Region: PHA02517 663917006297 HTH-like domain; Region: HTH_21; pfam13276 663917006298 Integrase core domain; Region: rve; pfam00665 663917006299 Integrase core domain; Region: rve_3; cl15866 663917006300 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 663917006301 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917006302 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 663917006303 Radical SAM superfamily; Region: Radical_SAM; pfam04055 663917006304 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 663917006305 FeS/SAM binding site; other site 663917006306 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 663917006307 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 663917006308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 663917006309 NAD(P) binding site [chemical binding]; other site 663917006310 active site 663917006311 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 663917006312 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917006313 Methyltransferase domain; Region: Methyltransf_31; pfam13847 663917006314 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 663917006315 S-adenosylmethionine binding site [chemical binding]; other site 663917006316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917006317 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 663917006318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 663917006319 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 663917006320 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 663917006321 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 663917006322 inhibitor-cofactor binding pocket; inhibition site 663917006323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917006324 catalytic residue [active] 663917006325 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 663917006326 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 663917006327 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 663917006328 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 663917006329 Coenzyme A binding pocket [chemical binding]; other site 663917006330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 663917006331 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 663917006332 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 663917006333 Chain length determinant protein; Region: Wzz; pfam02706 663917006334 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 663917006335 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 663917006336 conserved nucleotide sequence; KN400_R0216 663917006337 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 663917006338 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 663917006339 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 663917006340 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 663917006341 TPP-binding site [chemical binding]; other site 663917006342 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 663917006343 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 663917006344 dimer interface [polypeptide binding]; other site 663917006345 PYR/PP interface [polypeptide binding]; other site 663917006346 TPP binding site [chemical binding]; other site 663917006347 substrate binding site [chemical binding]; other site 663917006348 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 663917006349 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 663917006350 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 663917006351 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 663917006352 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 663917006353 S-adenosylmethionine binding site [chemical binding]; other site 663917006354 UGMP family protein; Validated; Region: PRK09604 663917006355 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 663917006356 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 663917006357 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 663917006358 putative active site [active] 663917006359 PhoH-like protein; Region: PhoH; pfam02562 663917006360 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 663917006361 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 663917006362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917006363 catalytic residue [active] 663917006364 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 663917006365 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917006366 GAF domain; Region: GAF; pfam01590 663917006367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917006368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917006369 metal binding site [ion binding]; metal-binding site 663917006370 active site 663917006371 I-site; other site 663917006372 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 663917006373 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 663917006374 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 663917006375 active site 663917006376 dimer interface [polypeptide binding]; other site 663917006377 effector binding site; other site 663917006378 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 663917006379 TSCPD domain; Region: TSCPD; pfam12637 663917006380 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 663917006381 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 663917006382 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 663917006383 active site 663917006384 Zn binding site [ion binding]; other site 663917006385 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 663917006386 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 663917006387 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 663917006388 homotetramer interface [polypeptide binding]; other site 663917006389 ligand binding site [chemical binding]; other site 663917006390 catalytic site [active] 663917006391 NAD binding site [chemical binding]; other site 663917006392 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 663917006393 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 663917006394 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 663917006395 FMN binding site [chemical binding]; other site 663917006396 substrate binding site [chemical binding]; other site 663917006397 putative catalytic residue [active] 663917006398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917006399 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 663917006400 dimer interface [polypeptide binding]; other site 663917006401 phosphorylation site [posttranslational modification] 663917006402 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 663917006403 ATP binding site [chemical binding]; other site 663917006404 Mg2+ binding site [ion binding]; other site 663917006405 G-X-G motif; other site 663917006406 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 663917006407 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 663917006408 active site 663917006409 phosphorylation site [posttranslational modification] 663917006410 intermolecular recognition site; other site 663917006411 dimerization interface [polypeptide binding]; other site 663917006412 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 663917006413 DNA binding site [nucleotide binding] 663917006414 conserved palindrome; KN400_R0217 663917006415 S-adenosylmethionine synthetase; Validated; Region: PRK05250 663917006416 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 663917006417 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 663917006418 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 663917006419 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 663917006420 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 663917006421 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 663917006422 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 663917006423 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 663917006424 dimerization domain swap beta strand [polypeptide binding]; other site 663917006425 regulatory protein interface [polypeptide binding]; other site 663917006426 active site 663917006427 regulatory phosphorylation site [posttranslational modification]; other site 663917006428 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 663917006429 active pocket/dimerization site; other site 663917006430 active site 663917006431 phosphorylation site [posttranslational modification] 663917006432 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 663917006433 AAA domain; Region: AAA_33; pfam13671 663917006434 HPr kinase/phosphorylase; Provisional; Region: PRK05428 663917006435 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 663917006436 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 663917006437 Hpr binding site; other site 663917006438 active site 663917006439 homohexamer subunit interaction site [polypeptide binding]; other site 663917006440 palindrome; KN400_R0218 663917006441 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 663917006442 30S subunit binding site; other site 663917006443 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 663917006444 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 663917006445 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 663917006446 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 663917006447 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 663917006448 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 663917006449 Walker A/P-loop; other site 663917006450 ATP binding site [chemical binding]; other site 663917006451 Q-loop/lid; other site 663917006452 ABC transporter signature motif; other site 663917006453 Walker B; other site 663917006454 D-loop; other site 663917006455 H-loop/switch region; other site 663917006456 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 663917006457 OstA-like protein; Region: OstA; pfam03968 663917006458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 663917006459 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 663917006460 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 663917006461 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 663917006462 active site 663917006463 phosphorylation site [posttranslational modification] 663917006464 intermolecular recognition site; other site 663917006465 dimerization interface [polypeptide binding]; other site 663917006466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917006467 Zn2+ binding site [ion binding]; other site 663917006468 Mg2+ binding site [ion binding]; other site 663917006469 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 663917006470 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 663917006471 active site 663917006472 motif I; other site 663917006473 motif II; other site 663917006474 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 663917006475 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 663917006476 putative active site [active] 663917006477 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 663917006478 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 663917006479 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 663917006480 CTP synthetase; Validated; Region: pyrG; PRK05380 663917006481 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 663917006482 Catalytic site [active] 663917006483 active site 663917006484 UTP binding site [chemical binding]; other site 663917006485 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 663917006486 active site 663917006487 putative oxyanion hole; other site 663917006488 catalytic triad [active] 663917006489 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 663917006490 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 663917006491 Ligand binding site; other site 663917006492 oligomer interface; other site 663917006493 conserved nucleotide sequence; KN400_R0219 663917006494 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 663917006495 Protein of unknown function (DUF422); Region: DUF422; cl00991 663917006496 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 663917006497 mce related protein; Region: MCE; pfam02470 663917006498 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 663917006499 Permease; Region: Permease; pfam02405 663917006500 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 663917006501 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 663917006502 substrate binding site [chemical binding]; other site 663917006503 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 663917006504 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 663917006505 substrate binding site [chemical binding]; other site 663917006506 ligand binding site [chemical binding]; other site 663917006507 conserved nucleotide sequence; KN400_R0220 663917006508 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 663917006509 conserved nucleotide sequence; KN400_R0221 663917006510 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 663917006511 DNA-binding site [nucleotide binding]; DNA binding site 663917006512 RNA-binding motif; other site 663917006513 palindrome; KN400_R0222 663917006514 2-isopropylmalate synthase; Validated; Region: PRK00915 663917006515 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 663917006516 active site 663917006517 catalytic residues [active] 663917006518 metal binding site [ion binding]; metal-binding site 663917006519 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 663917006520 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 663917006521 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 663917006522 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 663917006523 ketol-acid reductoisomerase; Provisional; Region: PRK05479 663917006524 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 663917006525 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 663917006526 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 663917006527 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 663917006528 putative valine binding site [chemical binding]; other site 663917006529 dimer interface [polypeptide binding]; other site 663917006530 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 663917006531 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 663917006532 PYR/PP interface [polypeptide binding]; other site 663917006533 dimer interface [polypeptide binding]; other site 663917006534 TPP binding site [chemical binding]; other site 663917006535 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 663917006536 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; cl01629 663917006537 TPP-binding site [chemical binding]; other site 663917006538 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 663917006539 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 663917006540 Glycoprotease family; Region: Peptidase_M22; pfam00814 663917006541 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 663917006542 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 663917006543 active site 663917006544 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 663917006545 protein binding site [polypeptide binding]; other site 663917006546 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 663917006547 putative substrate binding region [chemical binding]; other site 663917006548 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 663917006549 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 663917006550 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 663917006551 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 663917006552 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 663917006553 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 663917006554 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 663917006555 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 663917006556 catalytic residue [active] 663917006557 putative FPP diphosphate binding site; other site 663917006558 putative FPP binding hydrophobic cleft; other site 663917006559 dimer interface [polypeptide binding]; other site 663917006560 putative IPP diphosphate binding site; other site 663917006561 conserved nucleotide sequence; KN400_R0223 663917006562 ribosome recycling factor; Reviewed; Region: frr; PRK00083 663917006563 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 663917006564 hinge region; other site 663917006565 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 663917006566 putative nucleotide binding site [chemical binding]; other site 663917006567 uridine monophosphate binding site [chemical binding]; other site 663917006568 homohexameric interface [polypeptide binding]; other site 663917006569 elongation factor Ts; Reviewed; Region: tsf; PRK12332 663917006570 UBA/TS-N domain; Region: UBA; pfam00627 663917006571 Elongation factor TS; Region: EF_TS; pfam00889 663917006572 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 663917006573 rRNA interaction site [nucleotide binding]; other site 663917006574 S8 interaction site; other site 663917006575 putative laminin-1 binding site; other site 663917006576 Predicted permeases [General function prediction only]; Region: COG0795 663917006577 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 663917006578 Predicted permeases [General function prediction only]; Region: COG0795 663917006579 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 663917006580 IPT domain (domain D) of cyclodextrin glycosyltransferase (CGTase) and similar enzymes. These enzymes are involved in the enzymatic hydrolysis of alpha-1,4 linkages of starch polymers and belong to the glycosyl hydrolase family 13. Most consist of three...; Region: IPT_CGTD; cd00604 663917006581 IPT/TIG domain; Region: TIG; pfam01833 663917006582 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 663917006583 BON domain; Region: BON; pfam04972 663917006584 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 663917006585 response regulator PleD; Reviewed; Region: pleD; PRK09581 663917006586 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 663917006587 active site 663917006588 phosphorylation site [posttranslational modification] 663917006589 intermolecular recognition site; other site 663917006590 dimerization interface [polypeptide binding]; other site 663917006591 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 663917006592 putative active site [active] 663917006593 heme pocket [chemical binding]; other site 663917006594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917006595 metal binding site [ion binding]; metal-binding site 663917006596 active site 663917006597 I-site; other site 663917006598 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 663917006599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917006600 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 663917006601 dimerization interface [polypeptide binding]; other site 663917006602 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 663917006603 dimer interface [polypeptide binding]; other site 663917006604 phosphorylation site [posttranslational modification] 663917006605 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 663917006606 ATP binding site [chemical binding]; other site 663917006607 Mg2+ binding site [ion binding]; other site 663917006608 G-X-G motif; other site 663917006609 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917006610 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 663917006611 active site 663917006612 phosphorylation site [posttranslational modification] 663917006613 intermolecular recognition site; other site 663917006614 dimerization interface [polypeptide binding]; other site 663917006615 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 663917006616 putative binding surface; other site 663917006617 active site 663917006618 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 663917006619 MgtC family; Region: MgtC; pfam02308 663917006620 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 663917006621 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 663917006622 G1 box; other site 663917006623 GTP/Mg2+ binding site [chemical binding]; other site 663917006624 G2 box; other site 663917006625 Switch I region; other site 663917006626 G3 box; other site 663917006627 Switch II region; other site 663917006628 G4 box; other site 663917006629 G5 box; other site 663917006630 Sporulation related domain; Region: SPOR; pfam05036 663917006631 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 663917006632 elongation factor G; Reviewed; Region: PRK12740 663917006633 G1 box; other site 663917006634 GTP/Mg2+ binding site [chemical binding]; other site 663917006635 G2 box; other site 663917006636 Switch I region; other site 663917006637 G3 box; other site 663917006638 Switch II region; other site 663917006639 G4 box; other site 663917006640 G5 box; other site 663917006641 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 663917006642 seadornavirus VP2 protein; Region: seadorna_VP2; TIGR04236 663917006643 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 663917006644 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 663917006645 pantothenate kinase; Reviewed; Region: PRK13321 663917006646 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 663917006647 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 663917006648 putative DNA binding site [nucleotide binding]; other site 663917006649 dimerization interface [polypeptide binding]; other site 663917006650 putative Zn2+ binding site [ion binding]; other site 663917006651 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 663917006652 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 663917006653 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 663917006654 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 663917006655 dimerization interface [polypeptide binding]; other site 663917006656 active site 663917006657 conserved nucleotide sequence; KN400_R0224 663917006658 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 663917006659 dimerization interface [polypeptide binding]; other site 663917006660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917006661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917006662 metal binding site [ion binding]; metal-binding site 663917006663 active site 663917006664 I-site; other site 663917006665 Tetratricopeptide repeat; Region: TPR_6; pfam13174 663917006666 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917006667 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917006668 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 663917006669 dimer interface [polypeptide binding]; other site 663917006670 phosphorylation site [posttranslational modification] 663917006671 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 663917006672 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917006673 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917006674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917006675 Zn2+ binding site [ion binding]; other site 663917006676 Mg2+ binding site [ion binding]; other site 663917006677 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 663917006678 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 663917006679 active site 663917006680 phosphorylation site [posttranslational modification] 663917006681 intermolecular recognition site; other site 663917006682 dimerization interface [polypeptide binding]; other site 663917006683 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 663917006684 Walker A motif; other site 663917006685 ATP binding site [chemical binding]; other site 663917006686 Walker B motif; other site 663917006687 arginine finger; other site 663917006688 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917006689 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 663917006690 GAF domain; Region: GAF_3; pfam13492 663917006691 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 663917006692 ATP binding site [chemical binding]; other site 663917006693 G-X-G motif; other site 663917006694 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 663917006695 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 663917006696 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 663917006697 PEP-CTERM motif; Region: VPEP; pfam07589 663917006698 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 663917006699 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 663917006700 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 663917006701 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 663917006702 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917006703 acyl-activating enzyme (AAE) consensus motif; other site 663917006704 active site 663917006705 AMP binding site [chemical binding]; other site 663917006706 CoA binding site [chemical binding]; other site 663917006707 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 663917006708 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 663917006709 putative active site [active] 663917006710 putative metal binding site [ion binding]; other site 663917006711 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 663917006712 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917006713 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 663917006714 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 663917006715 active site 663917006716 dimer interface [polypeptide binding]; other site 663917006717 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 663917006718 Ligand Binding Site [chemical binding]; other site 663917006719 Molecular Tunnel; other site 663917006720 O-Antigen ligase; Region: Wzy_C; cl04850 663917006721 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 663917006722 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917006723 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917006724 AMP binding site [chemical binding]; other site 663917006725 active site 663917006726 CoA binding site [chemical binding]; other site 663917006727 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917006728 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 663917006729 serine O-acetyltransferase; Region: cysE; TIGR01172 663917006730 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 663917006731 trimer interface [polypeptide binding]; other site 663917006732 active site 663917006733 substrate binding site [chemical binding]; other site 663917006734 CoA binding site [chemical binding]; other site 663917006735 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917006736 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 663917006737 active site 663917006738 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917006739 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 663917006740 active site 663917006741 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 663917006742 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 663917006743 active site 663917006744 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 663917006745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917006746 Walker A/P-loop; other site 663917006747 ATP binding site [chemical binding]; other site 663917006748 Q-loop/lid; other site 663917006749 ABC transporter signature motif; other site 663917006750 Walker B; other site 663917006751 D-loop; other site 663917006752 H-loop/switch region; other site 663917006753 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 663917006754 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 663917006755 M28 Zn-Peptidases; Region: M28_like_3; cd05644 663917006756 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 663917006757 active site 663917006758 metal binding site [ion binding]; metal-binding site 663917006759 OpgC protein; Region: OpgC_C; cl17858 663917006760 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 663917006761 FOG: CBS domain [General function prediction only]; Region: COG0517 663917006762 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 663917006763 FOG: CBS domain [General function prediction only]; Region: COG0517 663917006764 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 663917006765 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 663917006766 Substrate binding site; other site 663917006767 metal-binding site 663917006768 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 663917006769 NeuB family; Region: NeuB; pfam03102 663917006770 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 663917006771 NeuB binding interface [polypeptide binding]; other site 663917006772 putative substrate binding site [chemical binding]; other site 663917006773 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 663917006774 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 663917006775 ligand binding site; other site 663917006776 tetramer interface; other site 663917006777 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 663917006778 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 663917006779 putative trimer interface [polypeptide binding]; other site 663917006780 putative CoA binding site [chemical binding]; other site 663917006781 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 663917006782 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 663917006783 inhibitor-cofactor binding pocket; inhibition site 663917006784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917006785 catalytic residue [active] 663917006786 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 663917006787 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 663917006788 NAD binding site [chemical binding]; other site 663917006789 substrate binding site [chemical binding]; other site 663917006790 active site 663917006791 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917006792 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 663917006793 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 663917006794 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 663917006795 DXD motif; other site 663917006796 EpsI family protein; Region: EpsI_fam; TIGR02914 663917006797 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 663917006798 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 663917006799 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 663917006800 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 663917006801 putative active site [active] 663917006802 putative catalytic site [active] 663917006803 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 663917006804 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 663917006805 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 663917006806 Walker A motif; other site 663917006807 ATP binding site [chemical binding]; other site 663917006808 Walker B motif; other site 663917006809 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 663917006810 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 663917006811 Chain length determinant protein; Region: Wzz; pfam02706 663917006812 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 663917006813 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 663917006814 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 663917006815 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 663917006816 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 663917006817 SLBB domain; Region: SLBB; pfam10531 663917006818 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 663917006819 Bacterial sugar transferase; Region: Bac_transf; pfam02397 663917006820 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 663917006821 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 663917006822 binding surface 663917006823 TPR motif; other site 663917006824 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 663917006825 binding surface 663917006826 TPR motif; other site 663917006827 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 663917006828 binding surface 663917006829 TPR motif; other site 663917006830 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 663917006831 binding surface 663917006832 TPR motif; other site 663917006833 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 663917006834 TPR motif; other site 663917006835 binding surface 663917006836 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 663917006837 binding surface 663917006838 TPR motif; other site 663917006839 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 663917006840 binding surface 663917006841 TPR motif; other site 663917006842 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 663917006843 binding surface 663917006844 TPR motif; other site 663917006845 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 663917006846 TPR motif; other site 663917006847 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917006848 palindrome; KN400_R0225 663917006849 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917006850 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 663917006851 active site 663917006852 phosphorylation site [posttranslational modification] 663917006853 intermolecular recognition site; other site 663917006854 dimerization interface [polypeptide binding]; other site 663917006855 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 663917006856 Walker A motif; other site 663917006857 ATP binding site [chemical binding]; other site 663917006858 Walker B motif; other site 663917006859 arginine finger; other site 663917006860 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917006861 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 663917006862 dimer interface [polypeptide binding]; other site 663917006863 phosphorylation site [posttranslational modification] 663917006864 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 663917006865 ATP binding site [chemical binding]; other site 663917006866 Mg2+ binding site [ion binding]; other site 663917006867 G-X-G motif; other site 663917006868 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 663917006869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 663917006870 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 663917006871 ligand binding site [chemical binding]; other site 663917006872 flexible hinge region; other site 663917006873 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 663917006874 putative switch regulator; other site 663917006875 non-specific DNA interactions [nucleotide binding]; other site 663917006876 DNA binding site [nucleotide binding] 663917006877 sequence specific DNA binding site [nucleotide binding]; other site 663917006878 putative cAMP binding site [chemical binding]; other site 663917006879 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 663917006880 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917006881 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917006882 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917006883 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917006884 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 663917006885 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 663917006886 Protein of unknown function (DUF512); Region: DUF512; pfam04459 663917006887 Domain of unknown function DUF20; Region: UPF0118; pfam01594 663917006888 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 663917006889 bacterial Hfq-like; Region: Hfq; cd01716 663917006890 hexamer interface [polypeptide binding]; other site 663917006891 Sm1 motif; other site 663917006892 RNA binding site [nucleotide binding]; other site 663917006893 Sm2 motif; other site 663917006894 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 663917006895 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 663917006896 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 663917006897 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 663917006898 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 663917006899 ATP binding site [chemical binding]; other site 663917006900 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 663917006901 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 663917006902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 663917006903 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 663917006904 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 663917006905 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 663917006906 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 663917006907 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 663917006908 TM-ABC transporter signature motif; other site 663917006909 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 663917006910 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 663917006911 TM-ABC transporter signature motif; other site 663917006912 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 663917006913 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 663917006914 Walker A/P-loop; other site 663917006915 ATP binding site [chemical binding]; other site 663917006916 Q-loop/lid; other site 663917006917 ABC transporter signature motif; other site 663917006918 Walker B; other site 663917006919 D-loop; other site 663917006920 H-loop/switch region; other site 663917006921 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 663917006922 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 663917006923 Walker A/P-loop; other site 663917006924 ATP binding site [chemical binding]; other site 663917006925 Q-loop/lid; other site 663917006926 ABC transporter signature motif; other site 663917006927 Walker B; other site 663917006928 D-loop; other site 663917006929 H-loop/switch region; other site 663917006930 FOG: CBS domain [General function prediction only]; Region: COG0517 663917006931 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 663917006932 palindrome; KN400_R0226 663917006933 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 663917006934 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 663917006935 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917006936 catalytic residue [active] 663917006937 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 663917006938 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 663917006939 trimerization site [polypeptide binding]; other site 663917006940 active site 663917006941 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 663917006942 NifU-like domain; Region: NifU; cl00484 663917006943 conserved nucleotide sequence; KN400_R0227 663917006944 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 663917006945 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 663917006946 active site 663917006947 substrate binding site [chemical binding]; other site 663917006948 metal binding site [ion binding]; metal-binding site 663917006949 conserved nucleotide sequence; KN400_R0228 663917006950 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 663917006951 nudix motif; other site 663917006952 PAS domain S-box; Region: sensory_box; TIGR00229 663917006953 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 663917006954 putative active site [active] 663917006955 heme pocket [chemical binding]; other site 663917006956 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917006957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917006958 metal binding site [ion binding]; metal-binding site 663917006959 active site 663917006960 I-site; other site 663917006961 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 663917006962 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 663917006963 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 663917006964 lipoyl attachment site [posttranslational modification]; other site 663917006965 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 663917006966 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 663917006967 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 663917006968 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 663917006969 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 663917006970 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 663917006971 carboxyltransferase (CT) interaction site; other site 663917006972 biotinylation site [posttranslational modification]; other site 663917006973 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 663917006974 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 663917006975 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 663917006976 active site 663917006977 Dehydroquinase class II; Region: DHquinase_II; pfam01220 663917006978 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 663917006979 trimer interface [polypeptide binding]; other site 663917006980 active site 663917006981 dimer interface [polypeptide binding]; other site 663917006982 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 663917006983 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 663917006984 TPR motif; other site 663917006985 binding surface 663917006986 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 663917006987 binding surface 663917006988 TPR motif; other site 663917006989 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 663917006990 active site 663917006991 dimer interface [polypeptide binding]; other site 663917006992 metal binding site [ion binding]; metal-binding site 663917006993 shikimate kinase; Reviewed; Region: aroK; PRK00131 663917006994 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 663917006995 ADP binding site [chemical binding]; other site 663917006996 magnesium binding site [ion binding]; other site 663917006997 putative shikimate binding site; other site 663917006998 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 663917006999 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 663917007000 Tetramer interface [polypeptide binding]; other site 663917007001 active site 663917007002 FMN-binding site [chemical binding]; other site 663917007003 AMIN domain; Region: AMIN; pfam11741 663917007004 AMIN domain; Region: AMIN; pfam11741 663917007005 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 663917007006 Secretin and TonB N terminus short domain; Region: STN; smart00965 663917007007 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 663917007008 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 663917007009 Pilus assembly protein, PilP; Region: PilP; pfam04351 663917007010 Pilus assembly protein, PilO; Region: PilO; pfam04350 663917007011 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 663917007012 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 663917007013 Competence protein A; Region: Competence_A; pfam11104 663917007014 Cell division protein FtsA; Region: FtsA; cl17206 663917007015 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 663917007016 non-specific DNA binding site [nucleotide binding]; other site 663917007017 salt bridge; other site 663917007018 sequence-specific DNA binding site [nucleotide binding]; other site 663917007019 PilX N-terminal; Region: PilX_N; pfam14341 663917007020 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 663917007021 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 663917007022 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12845 663917007023 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 663917007024 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 663917007025 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 663917007026 catalytic residues [active] 663917007027 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 663917007028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917007029 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 663917007030 active site 663917007031 phosphorylation site [posttranslational modification] 663917007032 intermolecular recognition site; other site 663917007033 dimerization interface [polypeptide binding]; other site 663917007034 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 663917007035 Walker A motif; other site 663917007036 ATP binding site [chemical binding]; other site 663917007037 Walker B motif; other site 663917007038 arginine finger; other site 663917007039 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917007040 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 663917007041 dimerization interface [polypeptide binding]; other site 663917007042 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 663917007043 dimer interface [polypeptide binding]; other site 663917007044 phosphorylation site [posttranslational modification] 663917007045 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 663917007046 ATP binding site [chemical binding]; other site 663917007047 G-X-G motif; other site 663917007048 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 663917007049 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 663917007050 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 663917007051 GAF domain; Region: GAF; cl17456 663917007052 PAS fold; Region: PAS_4; pfam08448 663917007053 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917007054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917007055 metal binding site [ion binding]; metal-binding site 663917007056 active site 663917007057 I-site; other site 663917007058 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 663917007059 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 663917007060 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 663917007061 HIGH motif; other site 663917007062 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 663917007063 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 663917007064 active site 663917007065 KMSKS motif; other site 663917007066 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 663917007067 tRNA binding surface [nucleotide binding]; other site 663917007068 anticodon binding site; other site 663917007069 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 663917007070 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007071 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 663917007072 active site 663917007073 phosphorylation site [posttranslational modification] 663917007074 intermolecular recognition site; other site 663917007075 dimerization interface [polypeptide binding]; other site 663917007076 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 663917007077 Beta-lactamase; Region: Beta-lactamase; pfam00144 663917007078 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 663917007079 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 663917007080 heterotetramer interface [polypeptide binding]; other site 663917007081 active site pocket [active] 663917007082 cleavage site 663917007083 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 663917007084 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 663917007085 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; cl17351 663917007086 nucleotide binding region [chemical binding]; other site 663917007087 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 663917007088 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 663917007089 acyl-activating enzyme (AAE) consensus motif; other site 663917007090 AMP binding site [chemical binding]; other site 663917007091 active site 663917007092 CoA binding site [chemical binding]; other site 663917007093 indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK06274 663917007094 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 663917007095 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 663917007096 dimer interface [polypeptide binding]; other site 663917007097 PYR/PP interface [polypeptide binding]; other site 663917007098 TPP binding site [chemical binding]; other site 663917007099 substrate binding site [chemical binding]; other site 663917007100 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 663917007101 TPP-binding site; other site 663917007102 4Fe-4S binding domain; Region: Fer4; pfam00037 663917007103 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 663917007104 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 663917007105 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 663917007106 DctM-like transporters; Region: DctM; pfam06808 663917007107 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 663917007108 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 663917007109 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 663917007110 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 663917007111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 663917007112 Coenzyme A binding pocket [chemical binding]; other site 663917007113 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 663917007114 active site 663917007115 phosphorylation site [posttranslational modification] 663917007116 intermolecular recognition site; other site 663917007117 dimerization interface [polypeptide binding]; other site 663917007118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917007119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917007120 metal binding site [ion binding]; metal-binding site 663917007121 active site 663917007122 I-site; other site 663917007123 HDOD domain; Region: HDOD; pfam08668 663917007124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917007125 Zn2+ binding site [ion binding]; other site 663917007126 Mg2+ binding site [ion binding]; other site 663917007127 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 663917007128 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 663917007129 Walker A/P-loop; other site 663917007130 ATP binding site [chemical binding]; other site 663917007131 Q-loop/lid; other site 663917007132 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 663917007133 ABC transporter signature motif; other site 663917007134 Walker B; other site 663917007135 D-loop; other site 663917007136 H-loop/switch region; other site 663917007137 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 663917007138 ATP-NAD kinase; Region: NAD_kinase; pfam01513 663917007139 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 663917007140 homodimer interface [polypeptide binding]; other site 663917007141 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 663917007142 active site pocket [active] 663917007143 recombination factor protein RarA; Reviewed; Region: PRK13342 663917007144 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 663917007145 Walker A motif; other site 663917007146 ATP binding site [chemical binding]; other site 663917007147 Walker B motif; other site 663917007148 arginine finger; other site 663917007149 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 663917007150 6-phosphofructokinase; Provisional; Region: PRK03202 663917007151 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 663917007152 active site 663917007153 ADP/pyrophosphate binding site [chemical binding]; other site 663917007154 dimerization interface [polypeptide binding]; other site 663917007155 allosteric effector site; other site 663917007156 fructose-1,6-bisphosphate binding site; other site 663917007157 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 663917007158 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 663917007159 motif II; other site 663917007160 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 663917007161 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 663917007162 active site 663917007163 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 663917007164 RNA/DNA hybrid binding site [nucleotide binding]; other site 663917007165 active site 663917007166 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 663917007167 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 663917007168 putative acyl-acceptor binding pocket; other site 663917007169 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007170 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007171 Cadherin repeat-like domain; Region: CA_like; cl15786 663917007172 Ca2+ binding site [ion binding]; other site 663917007173 Putative Ig domain; Region: He_PIG; pfam05345 663917007174 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007175 Putative Ig domain; Region: He_PIG; pfam05345 663917007176 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007177 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007178 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007179 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 663917007180 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 663917007181 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 663917007182 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 663917007183 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 663917007184 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 663917007185 active site 663917007186 catalytic residues [active] 663917007187 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 663917007188 six hairpins; KN400_R0229 663917007189 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 663917007190 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 663917007191 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 663917007192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 663917007193 rod shape-determining protein MreD; Region: MreD; cl01087 663917007194 rod shape-determining protein MreC; Provisional; Region: PRK13922 663917007195 rod shape-determining protein MreC; Region: MreC; pfam04085 663917007196 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 663917007197 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 663917007198 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 663917007199 substrate binding site; other site 663917007200 tetramer interface; other site 663917007201 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 663917007202 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 663917007203 active site 663917007204 motif I; other site 663917007205 motif II; other site 663917007206 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 663917007207 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 663917007208 putative ribose interaction site [chemical binding]; other site 663917007209 putative ADP binding site [chemical binding]; other site 663917007210 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 663917007211 active site 663917007212 nucleotide binding site [chemical binding]; other site 663917007213 HIGH motif; other site 663917007214 KMSKS motif; other site 663917007215 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 663917007216 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 663917007217 dimer interface [polypeptide binding]; other site 663917007218 active site 663917007219 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 663917007220 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 663917007221 active site 663917007222 rod shape-determining protein MreB; Provisional; Region: PRK13927 663917007223 MreB and similar proteins; Region: MreB_like; cd10225 663917007224 nucleotide binding site [chemical binding]; other site 663917007225 Mg binding site [ion binding]; other site 663917007226 putative protofilament interaction site [polypeptide binding]; other site 663917007227 RodZ interaction site [polypeptide binding]; other site 663917007228 SurA N-terminal domain; Region: SurA_N_3; cl07813 663917007229 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 663917007230 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 663917007231 active site 663917007232 ATP binding site [chemical binding]; other site 663917007233 substrate binding site [chemical binding]; other site 663917007234 YaeQ protein; Region: YaeQ; pfam07152 663917007235 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 663917007236 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917007237 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917007238 ABC transporter; Region: ABC_tran_2; pfam12848 663917007239 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 663917007240 ABC transporter; Region: ABC_tran_2; pfam12848 663917007241 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 663917007242 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 663917007243 active site 663917007244 phosphorylation site [posttranslational modification] 663917007245 intermolecular recognition site; other site 663917007246 dimerization interface [polypeptide binding]; other site 663917007247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917007248 Zn2+ binding site [ion binding]; other site 663917007249 Mg2+ binding site [ion binding]; other site 663917007250 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 663917007251 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917007252 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 663917007253 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 663917007254 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 663917007255 PAS domain; Region: PAS_9; pfam13426 663917007256 putative active site [active] 663917007257 heme pocket [chemical binding]; other site 663917007258 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 663917007259 LytTr DNA-binding domain; Region: LytTR; smart00850 663917007260 palindrome; KN400_R0230 663917007261 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 663917007262 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 663917007263 dimer interface [polypeptide binding]; other site 663917007264 active site 663917007265 glycine loop; other site 663917007266 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 663917007267 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 663917007268 SnoaL-like domain; Region: SnoaL_3; pfam13474 663917007269 SnoaL-like domain; Region: SnoaL_2; pfam12680 663917007270 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 663917007271 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 663917007272 active site 663917007273 NTP binding site [chemical binding]; other site 663917007274 metal binding triad [ion binding]; metal-binding site 663917007275 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 663917007276 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 663917007277 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 663917007278 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 663917007279 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 663917007280 FtsX-like permease family; Region: FtsX; pfam02687 663917007281 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917007282 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917007283 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917007284 Walker A/P-loop; other site 663917007285 ATP binding site [chemical binding]; other site 663917007286 Q-loop/lid; other site 663917007287 ABC transporter signature motif; other site 663917007288 Walker B; other site 663917007289 D-loop; other site 663917007290 H-loop/switch region; other site 663917007291 PAS fold; Region: PAS_4; pfam08448 663917007292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917007293 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 663917007294 ATP binding site [chemical binding]; other site 663917007295 Mg2+ binding site [ion binding]; other site 663917007296 G-X-G motif; other site 663917007297 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 663917007298 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 663917007299 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 663917007300 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 663917007301 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 663917007302 phosphoglycolate phosphatase; Provisional; Region: PRK13222 663917007303 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 663917007304 motif II; other site 663917007305 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917007306 diiron binding motif [ion binding]; other site 663917007307 GMP synthase; Reviewed; Region: guaA; PRK00074 663917007308 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 663917007309 AMP/PPi binding site [chemical binding]; other site 663917007310 candidate oxyanion hole; other site 663917007311 catalytic triad [active] 663917007312 potential glutamine specificity residues [chemical binding]; other site 663917007313 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 663917007314 ATP Binding subdomain [chemical binding]; other site 663917007315 Ligand Binding sites [chemical binding]; other site 663917007316 Dimerization subdomain; other site 663917007317 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 663917007318 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; cl17186 663917007319 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 663917007320 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 663917007321 active site 663917007322 conserved nucleotide sequence; KN400_R0231 663917007323 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 663917007324 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 663917007325 oligomer interface [polypeptide binding]; other site 663917007326 active site 663917007327 metal binding site [ion binding]; metal-binding site 663917007328 Bifunctional nuclease; Region: DNase-RNase; pfam02577 663917007329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 663917007330 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 663917007331 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 663917007332 FeS/SAM binding site; other site 663917007333 TRAM domain; Region: TRAM; pfam01938 663917007334 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 663917007335 Prefoldin subunit; Region: Prefoldin_2; pfam01920 663917007336 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 663917007337 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 663917007338 heme-binding residues [chemical binding]; other site 663917007339 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 663917007340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 663917007341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917007342 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 663917007343 dimerization interface [polypeptide binding]; other site 663917007344 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917007345 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917007346 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917007347 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917007348 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 663917007349 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 663917007350 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 663917007351 DNA polymerase III, delta subunit; Region: holA; TIGR01128 663917007352 Lipopolysaccharide-assembly; Region: LptE; pfam04390 663917007353 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 663917007354 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 663917007355 HIGH motif; other site 663917007356 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 663917007357 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 663917007358 active site 663917007359 KMSKS motif; other site 663917007360 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 663917007361 tRNA binding surface [nucleotide binding]; other site 663917007362 conserved nucleotide sequence; KN400_R0232 663917007363 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007364 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007365 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007366 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007367 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007368 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007369 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007370 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007371 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 663917007372 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007373 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 663917007374 active site 663917007375 phosphorylation site [posttranslational modification] 663917007376 intermolecular recognition site; other site 663917007377 dimerization interface [polypeptide binding]; other site 663917007378 GAF domain; Region: GAF_2; pfam13185 663917007379 GAF domain; Region: GAF_3; pfam13492 663917007380 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 663917007381 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 663917007382 active site 663917007383 phosphorylation site [posttranslational modification] 663917007384 intermolecular recognition site; other site 663917007385 dimerization interface [polypeptide binding]; other site 663917007386 CheB methylesterase; Region: CheB_methylest; pfam01339 663917007387 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 663917007388 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 663917007389 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 663917007390 S-adenosylmethionine binding site [chemical binding]; other site 663917007391 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 663917007392 HEAT repeats; Region: HEAT_2; pfam13646 663917007393 HEAT repeats; Region: HEAT_2; pfam13646 663917007394 HEAT repeats; Region: HEAT_2; pfam13646 663917007395 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 663917007396 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007397 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 663917007398 active site 663917007399 phosphorylation site [posttranslational modification] 663917007400 intermolecular recognition site; other site 663917007401 dimerization interface [polypeptide binding]; other site 663917007402 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 663917007403 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007404 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 663917007405 active site 663917007406 phosphorylation site [posttranslational modification] 663917007407 intermolecular recognition site; other site 663917007408 dimerization interface [polypeptide binding]; other site 663917007409 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917007410 putative CheA interaction surface; other site 663917007411 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 663917007412 AAA ATPase domain; Region: AAA_16; pfam13191 663917007413 Walker A motif; other site 663917007414 ATP binding site [chemical binding]; other site 663917007415 Walker B motif; other site 663917007416 arginine finger; other site 663917007417 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 663917007418 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 663917007419 putative binding surface; other site 663917007420 active site 663917007421 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 663917007422 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 663917007423 ATP binding site [chemical binding]; other site 663917007424 Mg2+ binding site [ion binding]; other site 663917007425 G-X-G motif; other site 663917007426 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 663917007427 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007428 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 663917007429 active site 663917007430 phosphorylation site [posttranslational modification] 663917007431 intermolecular recognition site; other site 663917007432 dimerization interface [polypeptide binding]; other site 663917007433 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 663917007434 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 663917007435 active site 663917007436 phosphorylation site [posttranslational modification] 663917007437 intermolecular recognition site; other site 663917007438 dimerization interface [polypeptide binding]; other site 663917007439 GTP-binding protein Der; Reviewed; Region: PRK00093 663917007440 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 663917007441 G1 box; other site 663917007442 GTP/Mg2+ binding site [chemical binding]; other site 663917007443 Switch I region; other site 663917007444 G2 box; other site 663917007445 Switch II region; other site 663917007446 G3 box; other site 663917007447 G4 box; other site 663917007448 G5 box; other site 663917007449 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 663917007450 G1 box; other site 663917007451 GTP/Mg2+ binding site [chemical binding]; other site 663917007452 Switch I region; other site 663917007453 G2 box; other site 663917007454 G3 box; other site 663917007455 Switch II region; other site 663917007456 G4 box; other site 663917007457 G5 box; other site 663917007458 GTPase Era; Reviewed; Region: era; PRK00089 663917007459 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 663917007460 G1 box; other site 663917007461 GTP/Mg2+ binding site [chemical binding]; other site 663917007462 Switch I region; other site 663917007463 G2 box; other site 663917007464 Switch II region; other site 663917007465 G3 box; other site 663917007466 G4 box; other site 663917007467 G5 box; other site 663917007468 KH domain; Region: KH_2; pfam07650 663917007469 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917007470 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 663917007471 FeS/SAM binding site; other site 663917007472 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 663917007473 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 663917007474 dimerization interface [polypeptide binding]; other site 663917007475 active site 663917007476 metal binding site [ion binding]; metal-binding site 663917007477 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 663917007478 dsRNA binding site [nucleotide binding]; other site 663917007479 thymidylate kinase; Validated; Region: tmk; PRK00698 663917007480 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 663917007481 TMP-binding site; other site 663917007482 ATP-binding site [chemical binding]; other site 663917007483 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 663917007484 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 663917007485 Walker A motif; other site 663917007486 ATP binding site [chemical binding]; other site 663917007487 Walker B motif; other site 663917007488 arginine finger; other site 663917007489 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 663917007490 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 663917007491 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 663917007492 active site 663917007493 HIGH motif; other site 663917007494 KMSKS motif; other site 663917007495 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 663917007496 tRNA binding surface [nucleotide binding]; other site 663917007497 anticodon binding site; other site 663917007498 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 663917007499 putative active site [active] 663917007500 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 663917007501 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 663917007502 homotrimer interaction site [polypeptide binding]; other site 663917007503 putative active site [active] 663917007504 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 663917007505 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917007506 Zn2+ binding site [ion binding]; other site 663917007507 Mg2+ binding site [ion binding]; other site 663917007508 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 663917007509 synthetase active site [active] 663917007510 NTP binding site [chemical binding]; other site 663917007511 metal binding site [ion binding]; metal-binding site 663917007512 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 663917007513 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 663917007514 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 663917007515 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 663917007516 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 663917007517 catalytic site [active] 663917007518 G-X2-G-X-G-K; other site 663917007519 hypothetical protein; Provisional; Region: PRK11820 663917007520 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 663917007521 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 663917007522 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 663917007523 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 663917007524 NAD binding site [chemical binding]; other site 663917007525 homodimer interface [polypeptide binding]; other site 663917007526 active site 663917007527 substrate binding site [chemical binding]; other site 663917007528 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 663917007529 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 663917007530 putative NAD(P) binding site [chemical binding]; other site 663917007531 active site 663917007532 putative substrate binding site [chemical binding]; other site 663917007533 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 663917007534 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 663917007535 putative active site [active] 663917007536 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 663917007537 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 663917007538 active site 663917007539 homodimer interface [polypeptide binding]; other site 663917007540 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 663917007541 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 663917007542 active site 663917007543 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 663917007544 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 663917007545 active site 663917007546 homodimer interface [polypeptide binding]; other site 663917007547 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 663917007548 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 663917007549 NAD(P) binding site [chemical binding]; other site 663917007550 homodimer interface [polypeptide binding]; other site 663917007551 substrate binding site [chemical binding]; other site 663917007552 active site 663917007553 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 663917007554 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 663917007555 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 663917007556 NADP binding site [chemical binding]; other site 663917007557 active site 663917007558 putative substrate binding site [chemical binding]; other site 663917007559 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 663917007560 S-adenosylmethionine binding site [chemical binding]; other site 663917007561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917007562 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917007563 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 663917007564 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 663917007565 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 663917007566 putative active site [active] 663917007567 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 663917007568 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 663917007569 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917007570 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 663917007571 putative metal binding site; other site 663917007572 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 663917007573 GDP-Fucose binding site [chemical binding]; other site 663917007574 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 663917007575 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 663917007576 putative active site [active] 663917007577 Trm112p-like protein; Region: Trm112p; cl01066 663917007578 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 663917007579 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 663917007580 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 663917007581 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 663917007582 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 663917007583 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 663917007584 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 663917007585 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 663917007586 Walker A/P-loop; other site 663917007587 ATP binding site [chemical binding]; other site 663917007588 Q-loop/lid; other site 663917007589 ABC transporter signature motif; other site 663917007590 Walker B; other site 663917007591 D-loop; other site 663917007592 H-loop/switch region; other site 663917007593 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 663917007594 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 663917007595 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 663917007596 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 663917007597 inhibitor-cofactor binding pocket; inhibition site 663917007598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917007599 catalytic residue [active] 663917007600 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 663917007601 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 663917007602 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 663917007603 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 663917007604 active site 663917007605 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 663917007606 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 663917007607 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 663917007608 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 663917007609 trimer interface [polypeptide binding]; other site 663917007610 active site 663917007611 UDP-GlcNAc binding site [chemical binding]; other site 663917007612 lipid binding site [chemical binding]; lipid-binding site 663917007613 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 663917007614 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 663917007615 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 663917007616 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 663917007617 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 663917007618 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 663917007619 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 663917007620 Surface antigen; Region: Bac_surface_Ag; pfam01103 663917007621 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917007622 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917007623 Walker A/P-loop; other site 663917007624 ATP binding site [chemical binding]; other site 663917007625 Q-loop/lid; other site 663917007626 ABC transporter signature motif; other site 663917007627 Walker B; other site 663917007628 D-loop; other site 663917007629 H-loop/switch region; other site 663917007630 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 663917007631 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917007632 FtsX-like permease family; Region: FtsX; pfam02687 663917007633 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 663917007634 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 663917007635 dimer interface [polypeptide binding]; other site 663917007636 putative anticodon binding site; other site 663917007637 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 663917007638 motif 1; other site 663917007639 active site 663917007640 motif 2; other site 663917007641 motif 3; other site 663917007642 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917007643 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917007644 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917007645 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917007646 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917007647 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 663917007648 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 663917007649 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 663917007650 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 663917007651 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 663917007652 EVE domain; Region: EVE; cl00728 663917007653 Uncharacterized conserved protein [Function unknown]; Region: COG4198 663917007654 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 663917007655 Sporulation related domain; Region: SPOR; pfam05036 663917007656 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 663917007657 NlpC/P60 family; Region: NLPC_P60; pfam00877 663917007658 peptide chain release factor 2; Validated; Region: prfB; PRK00578 663917007659 This domain is found in peptide chain release factors; Region: PCRF; smart00937 663917007660 RF-1 domain; Region: RF-1; pfam00472 663917007661 putative transposase OrfB; Reviewed; Region: PHA02517 663917007662 HTH-like domain; Region: HTH_21; pfam13276 663917007663 Integrase core domain; Region: rve; pfam00665 663917007664 Integrase core domain; Region: rve_3; cl15866 663917007665 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 663917007666 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 663917007667 Transporter associated domain; Region: CorC_HlyC; smart01091 663917007668 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 663917007669 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 663917007670 active site 663917007671 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 663917007672 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 663917007673 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 663917007674 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 663917007675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917007676 Zn2+ binding site [ion binding]; other site 663917007677 Mg2+ binding site [ion binding]; other site 663917007678 enolase; Provisional; Region: eno; PRK00077 663917007679 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 663917007680 dimer interface [polypeptide binding]; other site 663917007681 metal binding site [ion binding]; metal-binding site 663917007682 substrate binding pocket [chemical binding]; other site 663917007683 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 663917007684 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007685 active site 663917007686 phosphorylation site [posttranslational modification] 663917007687 intermolecular recognition site; other site 663917007688 dimerization interface [polypeptide binding]; other site 663917007689 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 663917007690 dimerization interface [polypeptide binding]; other site 663917007691 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 663917007692 dimer interface [polypeptide binding]; other site 663917007693 phosphorylation site [posttranslational modification] 663917007694 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 663917007695 ATP binding site [chemical binding]; other site 663917007696 Mg2+ binding site [ion binding]; other site 663917007697 G-X-G motif; other site 663917007698 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 663917007699 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 663917007700 active site 663917007701 Isochorismatase family; Region: Isochorismatase; pfam00857 663917007702 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 663917007703 catalytic triad [active] 663917007704 metal binding site [ion binding]; metal-binding site 663917007705 conserved cis-peptide bond; other site 663917007706 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 663917007707 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 663917007708 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 663917007709 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 663917007710 hexamer interface [polypeptide binding]; other site 663917007711 ligand binding site [chemical binding]; other site 663917007712 putative active site [active] 663917007713 NAD(P) binding site [chemical binding]; other site 663917007714 HDOD domain; Region: HDOD; pfam08668 663917007715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917007716 Zn2+ binding site [ion binding]; other site 663917007717 Mg2+ binding site [ion binding]; other site 663917007718 Cache domain; Region: Cache_1; pfam02743 663917007719 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; cl01054 663917007720 PAS domain S-box; Region: sensory_box; TIGR00229 663917007721 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 663917007722 putative active site [active] 663917007723 heme pocket [chemical binding]; other site 663917007724 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 663917007725 dimer interface [polypeptide binding]; other site 663917007726 phosphorylation site [posttranslational modification] 663917007727 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 663917007728 ATP binding site [chemical binding]; other site 663917007729 Mg2+ binding site [ion binding]; other site 663917007730 G-X-G motif; other site 663917007731 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 663917007732 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 663917007733 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 663917007734 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 663917007735 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 663917007736 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 663917007737 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917007738 ligand binding site [chemical binding]; other site 663917007739 AIR carboxylase; Region: AIRC; pfam00731 663917007740 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_cladeB; cd00884 663917007741 active site clefts [active] 663917007742 zinc binding site [ion binding]; other site 663917007743 dimer interface [polypeptide binding]; other site 663917007744 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 663917007745 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 663917007746 Malic enzyme, N-terminal domain; Region: malic; pfam00390 663917007747 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 663917007748 NAD(P) binding pocket [chemical binding]; other site 663917007749 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 663917007750 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 663917007751 active site residue [active] 663917007752 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 663917007753 active site residue [active] 663917007754 putative inner membrane protein; Provisional; Region: PRK11099 663917007755 high affinity sulphate transporter 1; Region: sulP; TIGR00815 663917007756 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 663917007757 Sulfate transporter family; Region: Sulfate_transp; pfam00916 663917007758 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 663917007759 Response regulator receiver domain; Region: Response_reg; pfam00072 663917007760 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 663917007761 active site 663917007762 phosphorylation site [posttranslational modification] 663917007763 intermolecular recognition site; other site 663917007764 dimerization interface [polypeptide binding]; other site 663917007765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917007766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917007767 metal binding site [ion binding]; metal-binding site 663917007768 active site 663917007769 I-site; other site 663917007770 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 663917007771 PAS domain S-box; Region: sensory_box; TIGR00229 663917007772 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 663917007773 putative active site [active] 663917007774 heme pocket [chemical binding]; other site 663917007775 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917007776 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 663917007777 putative active site [active] 663917007778 heme pocket [chemical binding]; other site 663917007779 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 663917007780 dimer interface [polypeptide binding]; other site 663917007781 phosphorylation site [posttranslational modification] 663917007782 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 663917007783 ATP binding site [chemical binding]; other site 663917007784 Mg2+ binding site [ion binding]; other site 663917007785 G-X-G motif; other site 663917007786 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917007787 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 663917007788 active site 663917007789 phosphorylation site [posttranslational modification] 663917007790 intermolecular recognition site; other site 663917007791 dimerization interface [polypeptide binding]; other site 663917007792 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 663917007793 putative binding surface; other site 663917007794 active site 663917007795 Mechanosensitive ion channel; Region: MS_channel; pfam00924 663917007796 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 663917007797 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 663917007798 transmembrane helices; other site 663917007799 TrkA-C domain; Region: TrkA_C; pfam02080 663917007800 TrkA-C domain; Region: TrkA_C; pfam02080 663917007801 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 663917007802 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 663917007803 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 663917007804 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 663917007805 S-adenosylmethionine binding site [chemical binding]; other site 663917007806 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 663917007807 Protein of unknown function (DUF1475); Region: DUF1475; pfam07343 663917007808 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 663917007809 hydrophobic ligand binding site; other site 663917007810 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 663917007811 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 663917007812 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 663917007813 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 663917007814 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 663917007815 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 663917007816 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 663917007817 Soluble P-type ATPase [General function prediction only]; Region: COG4087 663917007818 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 663917007819 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 663917007820 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 663917007821 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 663917007822 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 663917007823 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 663917007824 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 663917007825 S-adenosylmethionine binding site [chemical binding]; other site 663917007826 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 663917007827 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 663917007828 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 663917007829 Uncharacterized conserved protein [Function unknown]; Region: COG1615 663917007830 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 663917007831 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 663917007832 Ligand Binding Site [chemical binding]; other site 663917007833 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 663917007834 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 663917007835 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 663917007836 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 663917007837 active site 663917007838 homotetramer interface [polypeptide binding]; other site 663917007839 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 663917007840 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 663917007841 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 663917007842 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 663917007843 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917007844 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 663917007845 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 663917007846 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 663917007847 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917007848 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 663917007849 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 663917007850 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 663917007851 Domain of unknown function (DUF389); Region: DUF389; pfam04087 663917007852 Protein of unknown function, DUF481; Region: DUF481; pfam04338 663917007853 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 663917007854 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 663917007855 potassium uptake protein; Region: kup; TIGR00794 663917007856 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 663917007857 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 663917007858 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 663917007859 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 663917007860 Soluble P-type ATPase [General function prediction only]; Region: COG4087 663917007861 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 663917007862 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 663917007863 Na binding site [ion binding]; other site 663917007864 Protein of unknown function, DUF485; Region: DUF485; pfam04341 663917007865 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 663917007866 Transcriptional regulator [Transcription]; Region: IclR; COG1414 663917007867 Bacterial transcriptional regulator; Region: IclR; pfam01614 663917007868 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 663917007869 Mechanosensitive ion channel; Region: MS_channel; pfam00924 663917007870 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 663917007871 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 663917007872 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 663917007873 catalytic site [active] 663917007874 active site 663917007875 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 663917007876 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 663917007877 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 663917007878 active site 663917007879 catalytic site [active] 663917007880 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 663917007881 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 663917007882 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 663917007883 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 663917007884 active site 663917007885 catalytic site [active] 663917007886 trehalose synthase; Region: treS_nterm; TIGR02456 663917007887 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 663917007888 active site 663917007889 catalytic site [active] 663917007890 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 663917007891 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 663917007892 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 663917007893 MarR family; Region: MarR; pfam01047 663917007894 MarR family; Region: MarR_2; cl17246 663917007895 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 663917007896 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 663917007897 Cl- selectivity filter; other site 663917007898 Cl- binding residues [ion binding]; other site 663917007899 pore gating glutamate residue; other site 663917007900 dimer interface [polypeptide binding]; other site 663917007901 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_assoc2; cd04613 663917007902 Cupin domain; Region: Cupin_2; cl17218 663917007903 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 663917007904 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 663917007905 NADP binding site [chemical binding]; other site 663917007906 active site 663917007907 putative substrate binding site [chemical binding]; other site 663917007908 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 663917007909 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 663917007910 NAD binding site [chemical binding]; other site 663917007911 substrate binding site [chemical binding]; other site 663917007912 homodimer interface [polypeptide binding]; other site 663917007913 active site 663917007914 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 663917007915 Organic solvent tolerance protein; Region: OstA_C; pfam04453 663917007916 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 663917007917 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 663917007918 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 663917007919 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 663917007920 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 663917007921 substrate binding site [chemical binding]; other site 663917007922 active site 663917007923 catalytic residues [active] 663917007924 heterodimer interface [polypeptide binding]; other site 663917007925 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 663917007926 dimerization interface [polypeptide binding]; other site 663917007927 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917007928 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917007929 dimer interface [polypeptide binding]; other site 663917007930 putative CheW interface [polypeptide binding]; other site 663917007931 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 663917007932 Water Stress and Hypersensitive response; Region: WHy; smart00769 663917007933 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 663917007934 N-acetyl-D-glucosamine binding site [chemical binding]; other site 663917007935 catalytic residue [active] 663917007936 conserved nucleotide sequence; KN400_R0233 663917007937 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 663917007938 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 663917007939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917007940 catalytic residue [active] 663917007941 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 663917007942 ADP-ribose binding site [chemical binding]; other site 663917007943 conserved nucleotide sequence; KN400_R0234 663917007944 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 663917007945 active site 663917007946 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 663917007947 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 663917007948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917007949 catalytic residue [active] 663917007950 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 663917007951 active site 663917007952 ribulose/triose binding site [chemical binding]; other site 663917007953 phosphate binding site [ion binding]; other site 663917007954 substrate (anthranilate) binding pocket [chemical binding]; other site 663917007955 product (indole) binding pocket [chemical binding]; other site 663917007956 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 663917007957 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 663917007958 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 663917007959 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 663917007960 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 663917007961 glutamine binding [chemical binding]; other site 663917007962 catalytic triad [active] 663917007963 anthranilate synthase component I; Provisional; Region: PRK13565 663917007964 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 663917007965 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 663917007966 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917007967 GAF domain; Region: GAF_2; pfam13185 663917007968 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 663917007969 dimer interface [polypeptide binding]; other site 663917007970 phosphorylation site [posttranslational modification] 663917007971 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 663917007972 ATP binding site [chemical binding]; other site 663917007973 G-X-G motif; other site 663917007974 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 663917007975 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 663917007976 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 663917007977 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 663917007978 B12 binding site [chemical binding]; other site 663917007979 HAMP domain; Region: HAMP; pfam00672 663917007980 dimerization interface [polypeptide binding]; other site 663917007981 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917007982 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 663917007983 putative active site [active] 663917007984 heme pocket [chemical binding]; other site 663917007985 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 663917007986 dimer interface [polypeptide binding]; other site 663917007987 phosphorylation site [posttranslational modification] 663917007988 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 663917007989 ATP binding site [chemical binding]; other site 663917007990 Mg2+ binding site [ion binding]; other site 663917007991 G-X-G motif; other site 663917007992 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 663917007993 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 663917007994 ligand binding site [chemical binding]; other site 663917007995 heat shock protein 90; Provisional; Region: PRK05218 663917007996 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 663917007997 ATP binding site [chemical binding]; other site 663917007998 Mg2+ binding site [ion binding]; other site 663917007999 G-X-G motif; other site 663917008000 Cytochrome P450; Region: p450; cl12078 663917008001 putative transposase OrfB; Reviewed; Region: PHA02517 663917008002 HTH-like domain; Region: HTH_21; pfam13276 663917008003 Integrase core domain; Region: rve; pfam00665 663917008004 Integrase core domain; Region: rve_3; cl15866 663917008005 Transposase domain (DUF772); Region: DUF772; pfam05598 663917008006 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 663917008007 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 663917008008 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 663917008009 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917008010 Walker A/P-loop; other site 663917008011 ATP binding site [chemical binding]; other site 663917008012 AAA domain; Region: AAA_21; pfam13304 663917008013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917008014 ABC transporter signature motif; other site 663917008015 Walker B; other site 663917008016 D-loop; other site 663917008017 H-loop/switch region; other site 663917008018 conserved nucleotide sequence; KN400_R0292 663917008019 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 663917008020 active site 663917008021 iron coordination sites [ion binding]; other site 663917008022 substrate binding pocket [chemical binding]; other site 663917008023 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 663917008024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 663917008025 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 663917008026 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 663917008027 non-specific DNA binding site [nucleotide binding]; other site 663917008028 salt bridge; other site 663917008029 sequence-specific DNA binding site [nucleotide binding]; other site 663917008030 HipA N-terminal domain; Region: Couple_hipA; cl11853 663917008031 HipA-like N-terminal domain; Region: HipA_N; pfam07805 663917008032 HipA-like C-terminal domain; Region: HipA_C; pfam07804 663917008033 conserved nucleotide sequence fragment (transposon-derived); KN400_R0235 663917008034 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 663917008035 Sensory domain found in PocR; Region: PocR; pfam10114 663917008036 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 663917008037 PAS domain S-box; Region: sensory_box; TIGR00229 663917008038 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 663917008039 putative active site [active] 663917008040 heme pocket [chemical binding]; other site 663917008041 GAF domain; Region: GAF; pfam01590 663917008042 GAF domain; Region: GAF_2; pfam13185 663917008043 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917008044 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 663917008045 putative active site [active] 663917008046 heme pocket [chemical binding]; other site 663917008047 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 663917008048 dimer interface [polypeptide binding]; other site 663917008049 phosphorylation site [posttranslational modification] 663917008050 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 663917008051 ATP binding site [chemical binding]; other site 663917008052 Mg2+ binding site [ion binding]; other site 663917008053 G-X-G motif; other site 663917008054 Response regulator receiver domain; Region: Response_reg; pfam00072 663917008055 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 663917008056 active site 663917008057 phosphorylation site [posttranslational modification] 663917008058 intermolecular recognition site; other site 663917008059 dimerization interface [polypeptide binding]; other site 663917008060 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 663917008061 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 663917008062 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 663917008063 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 663917008064 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 663917008065 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 663917008066 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 663917008067 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 663917008068 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 663917008069 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 663917008070 HSP70 interaction site [polypeptide binding]; other site 663917008071 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 663917008072 substrate binding site [polypeptide binding]; other site 663917008073 dimer interface [polypeptide binding]; other site 663917008074 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 663917008075 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 663917008076 putative dimer interface [polypeptide binding]; other site 663917008077 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 663917008078 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 663917008079 putative dimer interface [polypeptide binding]; other site 663917008080 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 663917008081 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 663917008082 putative dimer interface [polypeptide binding]; other site 663917008083 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 663917008084 homodimer interaction site [polypeptide binding]; other site 663917008085 cofactor binding site; other site 663917008086 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 663917008087 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 663917008088 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 663917008089 Walker A/P-loop; other site 663917008090 ATP binding site [chemical binding]; other site 663917008091 Q-loop/lid; other site 663917008092 ABC transporter signature motif; other site 663917008093 Walker B; other site 663917008094 D-loop; other site 663917008095 H-loop/switch region; other site 663917008096 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 663917008097 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 663917008098 FtsX-like permease family; Region: FtsX; pfam02687 663917008099 FtsX-like permease family; Region: FtsX; pfam02687 663917008100 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 663917008101 active site 663917008102 catalytic triad [active] 663917008103 oxyanion hole [active] 663917008104 switch loop; other site 663917008105 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917008106 putative CheA interaction surface; other site 663917008107 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 663917008108 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 663917008109 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 663917008110 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 663917008111 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 663917008112 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917008113 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 663917008114 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 663917008115 nickel binding site [ion binding]; other site 663917008116 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917008117 dimer interface [polypeptide binding]; other site 663917008118 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917008119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917008120 dimer interface [polypeptide binding]; other site 663917008121 putative CheW interface [polypeptide binding]; other site 663917008122 putative CheW interface [polypeptide binding]; other site 663917008123 conserved nucleotide sequence; KN400_R0236 663917008124 conserved nucleotide sequence; KN400_R0237 663917008125 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 663917008126 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 663917008127 homodimer interface [polypeptide binding]; other site 663917008128 substrate-cofactor binding pocket; other site 663917008129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917008130 catalytic residue [active] 663917008131 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 663917008132 putative FMN binding site [chemical binding]; other site 663917008133 NADPH bind site [chemical binding]; other site 663917008134 conserved nucleotide sequence; KN400_R0238 663917008135 pyruvate carboxylase; Reviewed; Region: PRK12999 663917008136 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 663917008137 ATP-grasp domain; Region: ATP-grasp_4; cl17255 663917008138 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 663917008139 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 663917008140 active site 663917008141 catalytic residues [active] 663917008142 metal binding site [ion binding]; metal-binding site 663917008143 homodimer binding site [polypeptide binding]; other site 663917008144 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 663917008145 carboxyltransferase (CT) interaction site; other site 663917008146 biotinylation site [posttranslational modification]; other site 663917008147 conserved nucleotide sequence; KN400_R0239 663917008148 SurA N-terminal domain; Region: SurA_N_3; cl07813 663917008149 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 663917008150 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 663917008151 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 663917008152 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 663917008153 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 663917008154 dimer interface [polypeptide binding]; other site 663917008155 active site residues [active] 663917008156 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 663917008157 Cytochrome c; Region: Cytochrom_C; cl11414 663917008158 AAA domain; Region: AAA_32; pfam13654 663917008159 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 663917008160 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 663917008161 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 663917008162 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 663917008163 E3 interaction surface; other site 663917008164 lipoyl attachment site [posttranslational modification]; other site 663917008165 e3 binding domain; Region: E3_binding; pfam02817 663917008166 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 663917008167 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 663917008168 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 663917008169 alpha subunit interface [polypeptide binding]; other site 663917008170 TPP binding site [chemical binding]; other site 663917008171 heterodimer interface [polypeptide binding]; other site 663917008172 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917008173 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 663917008174 dimer interface [polypeptide binding]; other site 663917008175 conserved nucleotide sequence; KN400_R0240 663917008176 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 663917008177 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 663917008178 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 663917008179 Methyltransferase domain; Region: Methyltransf_31; pfam13847 663917008180 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 663917008181 S-adenosylmethionine binding site [chemical binding]; other site 663917008182 conserved nucleotide sequence; KN400_R0241 663917008183 conserved nucleotide sequence; KN400_R0242 663917008184 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 663917008185 synthetase active site [active] 663917008186 NTP binding site [chemical binding]; other site 663917008187 metal binding site [ion binding]; metal-binding site 663917008188 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 663917008189 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 663917008190 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 663917008191 tetramer interface [polypeptide binding]; other site 663917008192 TPP-binding site [chemical binding]; other site 663917008193 heterodimer interface [polypeptide binding]; other site 663917008194 phosphorylation loop region [posttranslational modification] 663917008195 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917008196 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 663917008197 substrate binding pocket [chemical binding]; other site 663917008198 membrane-bound complex binding site; other site 663917008199 hinge residues; other site 663917008200 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 663917008201 dimer interface [polypeptide binding]; other site 663917008202 phosphorylation site [posttranslational modification] 663917008203 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 663917008204 ATP binding site [chemical binding]; other site 663917008205 Mg2+ binding site [ion binding]; other site 663917008206 G-X-G motif; other site 663917008207 aconitate hydratase; Validated; Region: PRK07229 663917008208 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 663917008209 substrate binding site [chemical binding]; other site 663917008210 ligand binding site [chemical binding]; other site 663917008211 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 663917008212 substrate binding site [chemical binding]; other site 663917008213 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 663917008214 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 663917008215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917008216 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 663917008217 conserved nucleotide sequence; KN400_R0243 663917008218 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 663917008219 Sel1-like repeats; Region: SEL1; smart00671 663917008220 Sel1 repeat; Region: Sel1; cl02723 663917008221 Sel1 repeat; Region: Sel1; pfam08238 663917008222 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 663917008223 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 663917008224 E3 interaction surface; other site 663917008225 lipoyl attachment site [posttranslational modification]; other site 663917008226 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 663917008227 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 663917008228 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 663917008229 TPP-binding site [chemical binding]; other site 663917008230 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 663917008231 dimer interface [polypeptide binding]; other site 663917008232 PYR/PP interface [polypeptide binding]; other site 663917008233 TPP binding site [chemical binding]; other site 663917008234 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 663917008235 methionine sulfoxide reductase B; Provisional; Region: PRK00222 663917008236 SelR domain; Region: SelR; pfam01641 663917008237 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 663917008238 metal-binding site [ion binding] 663917008239 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 663917008240 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 663917008241 metal-binding site [ion binding] 663917008242 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 663917008243 Soluble P-type ATPase [General function prediction only]; Region: COG4087 663917008244 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 663917008245 Domain of unknown function DUF20; Region: UPF0118; pfam01594 663917008246 Domain of unknown function DUF20; Region: UPF0118; pfam01594 663917008247 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 663917008248 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 663917008249 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 663917008250 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 663917008251 putative active site [active] 663917008252 putative metal binding site [ion binding]; other site 663917008253 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 663917008254 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 663917008255 YtxH-like protein; Region: YtxH; pfam12732 663917008256 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 663917008257 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 663917008258 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 663917008259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917008260 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 663917008261 putative hydrolase; Provisional; Region: PRK02113 663917008262 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 663917008263 integron integrase; Region: integrase_gron; TIGR02249 663917008264 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 663917008265 Int/Topo IB signature motif; other site 663917008266 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 663917008267 Divergent AAA domain; Region: AAA_4; pfam04326 663917008268 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 663917008269 oligomeric interface; other site 663917008270 putative active site [active] 663917008271 homodimer interface [polypeptide binding]; other site 663917008272 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 663917008273 GAF domain; Region: GAF; pfam01590 663917008274 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917008275 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917008276 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 663917008277 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 663917008278 Walker A motif; other site 663917008279 ATP binding site [chemical binding]; other site 663917008280 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 663917008281 Walker B motif; other site 663917008282 arginine finger; other site 663917008283 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 663917008284 binding surface 663917008285 TPR motif; other site 663917008286 TPR repeat; Region: TPR_11; pfam13414 663917008287 TPR repeat; Region: TPR_11; pfam13414 663917008288 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 663917008289 binding surface 663917008290 TPR motif; other site 663917008291 TPR repeat; Region: TPR_11; pfam13414 663917008292 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 663917008293 binding surface 663917008294 TPR motif; other site 663917008295 TPR repeat; Region: TPR_11; pfam13414 663917008296 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 663917008297 S-adenosylmethionine binding site [chemical binding]; other site 663917008298 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 663917008299 binding surface 663917008300 TPR motif; other site 663917008301 TPR repeat; Region: TPR_11; pfam13414 663917008302 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 663917008303 binding surface 663917008304 TPR motif; other site 663917008305 TPR repeat; Region: TPR_11; pfam13414 663917008306 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 663917008307 binding surface 663917008308 TPR motif; other site 663917008309 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 663917008310 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 663917008311 Radical SAM superfamily; Region: Radical_SAM; pfam04055 663917008312 FeS/SAM binding site; other site 663917008313 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 663917008314 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917008315 binding surface 663917008316 TPR motif; other site 663917008317 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 663917008318 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 663917008319 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 663917008320 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 663917008321 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 663917008322 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 663917008323 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 663917008324 Ligand Binding Site [chemical binding]; other site 663917008325 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 663917008326 GAF domain; Region: GAF_3; pfam13492 663917008327 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 663917008328 dimer interface [polypeptide binding]; other site 663917008329 phosphorylation site [posttranslational modification] 663917008330 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 663917008331 ATP binding site [chemical binding]; other site 663917008332 Mg2+ binding site [ion binding]; other site 663917008333 G-X-G motif; other site 663917008334 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 663917008335 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 663917008336 active site 663917008337 phosphorylation site [posttranslational modification] 663917008338 intermolecular recognition site; other site 663917008339 dimerization interface [polypeptide binding]; other site 663917008340 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 663917008341 DNA binding site [nucleotide binding] 663917008342 osmotic shock-responsive RNA structure; KN400_R0086 663917008343 K+ potassium transporter; Region: K_trans; pfam02705 663917008344 Predicted GTPase [General function prediction only]; Region: COG2403 663917008345 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 663917008346 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 663917008347 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 663917008348 putative substrate binding site [chemical binding]; other site 663917008349 nucleotide binding site [chemical binding]; other site 663917008350 nucleotide binding site [chemical binding]; other site 663917008351 homodimer interface [polypeptide binding]; other site 663917008352 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 663917008353 Uncharacterized conserved protein [Function unknown]; Region: COG1915 663917008354 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 663917008355 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 663917008356 active site 663917008357 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 663917008358 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 663917008359 FeS/SAM binding site; other site 663917008360 conserved nucleotide sequence; KN400_R0244 663917008361 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 663917008362 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 663917008363 putative substrate translocation pore; other site 663917008364 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 663917008365 Major Facilitator Superfamily; Region: MFS_1; pfam07690 663917008366 putative substrate translocation pore; other site 663917008367 Cache domain; Region: Cache_1; pfam02743 663917008368 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 663917008369 dimerization interface [polypeptide binding]; other site 663917008370 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917008371 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 663917008372 dimer interface [polypeptide binding]; other site 663917008373 phosphorylation site [posttranslational modification] 663917008374 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 663917008375 ATP binding site [chemical binding]; other site 663917008376 Mg2+ binding site [ion binding]; other site 663917008377 G-X-G motif; other site 663917008378 NHL repeat; Region: NHL; pfam01436 663917008379 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008380 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917008381 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008382 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008383 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008384 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008385 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008386 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008387 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 663917008388 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008389 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008390 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008391 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917008392 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008393 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008394 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008395 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008396 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917008397 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008398 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008399 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917008400 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917008401 SurA N-terminal domain; Region: SurA_N; pfam09312 663917008402 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 663917008403 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 663917008404 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 663917008405 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 663917008406 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 663917008407 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 663917008408 spermidine synthase; Provisional; Region: PRK03612 663917008409 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 663917008410 S-adenosylmethionine binding site [chemical binding]; other site 663917008411 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 663917008412 Response regulator receiver domain; Region: Response_reg; pfam00072 663917008413 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 663917008414 active site 663917008415 phosphorylation site [posttranslational modification] 663917008416 intermolecular recognition site; other site 663917008417 dimerization interface [polypeptide binding]; other site 663917008418 PAS fold; Region: PAS_4; pfam08448 663917008419 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 663917008420 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 663917008421 Walker A motif; other site 663917008422 ATP binding site [chemical binding]; other site 663917008423 Walker B motif; other site 663917008424 arginine finger; other site 663917008425 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917008426 Cache domain; Region: Cache_2; cl07034 663917008427 HAMP domain; Region: HAMP; pfam00672 663917008428 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 663917008429 dimer interface [polypeptide binding]; other site 663917008430 phosphorylation site [posttranslational modification] 663917008431 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 663917008432 ATP binding site [chemical binding]; other site 663917008433 Mg2+ binding site [ion binding]; other site 663917008434 G-X-G motif; other site 663917008435 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 663917008436 binding surface 663917008437 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917008438 TPR motif; other site 663917008439 Tetratricopeptide repeat; Region: TPR_16; pfam13432 663917008440 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 663917008441 Ligand binding site; other site 663917008442 Putative Catalytic site; other site 663917008443 DXD motif; other site 663917008444 CHASE4 domain; Region: CHASE4; cl01308 663917008445 PAS domain S-box; Region: sensory_box; TIGR00229 663917008446 PAS domain; Region: PAS; smart00091 663917008447 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917008448 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917008449 metal binding site [ion binding]; metal-binding site 663917008450 active site 663917008451 I-site; other site 663917008452 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 663917008453 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 663917008454 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 663917008455 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 663917008456 active site residue [active] 663917008457 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 663917008458 active site residue [active] 663917008459 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 663917008460 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 663917008461 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 663917008462 active site residue [active] 663917008463 Rhodanese Homology Domain; Region: RHOD; smart00450 663917008464 active site residue [active] 663917008465 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 663917008466 active site residue [active] 663917008467 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 663917008468 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 663917008469 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 663917008470 nucleotide binding site [chemical binding]; other site 663917008471 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 663917008472 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 663917008473 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 663917008474 CPxP motif; other site 663917008475 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 663917008476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 663917008477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917008478 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 663917008479 putative dimerization interface [polypeptide binding]; other site 663917008480 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917008481 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 663917008482 active site 663917008483 phosphorylation site [posttranslational modification] 663917008484 intermolecular recognition site; other site 663917008485 dimerization interface [polypeptide binding]; other site 663917008486 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 663917008487 Walker A motif; other site 663917008488 ATP binding site [chemical binding]; other site 663917008489 Walker B motif; other site 663917008490 arginine finger; other site 663917008491 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917008492 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 663917008493 putative FMN binding site [chemical binding]; other site 663917008494 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 663917008495 precorrin-3B synthase; Region: CobG; TIGR02435 663917008496 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 663917008497 FecR protein; Region: FecR; pfam04773 663917008498 elongation factor G; Reviewed; Region: PRK13351 663917008499 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 663917008500 G1 box; other site 663917008501 putative GEF interaction site [polypeptide binding]; other site 663917008502 GTP/Mg2+ binding site [chemical binding]; other site 663917008503 Switch I region; other site 663917008504 G2 box; other site 663917008505 G3 box; other site 663917008506 Switch II region; other site 663917008507 G4 box; other site 663917008508 G5 box; other site 663917008509 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 663917008510 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 663917008511 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 663917008512 GTPase RsgA; Reviewed; Region: PRK01889 663917008513 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 663917008514 RNA binding site [nucleotide binding]; other site 663917008515 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 663917008516 GTPase/Zn-binding domain interface [polypeptide binding]; other site 663917008517 GTP/Mg2+ binding site [chemical binding]; other site 663917008518 G4 box; other site 663917008519 G5 box; other site 663917008520 G1 box; other site 663917008521 Switch I region; other site 663917008522 G2 box; other site 663917008523 G3 box; other site 663917008524 Switch II region; other site 663917008525 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 663917008526 dimerization interface [polypeptide binding]; other site 663917008527 PAS domain S-box; Region: sensory_box; TIGR00229 663917008528 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 663917008529 putative active site [active] 663917008530 heme pocket [chemical binding]; other site 663917008531 PAS domain; Region: PAS_8; pfam13188 663917008532 PAS domain; Region: PAS_9; pfam13426 663917008533 GAF domain; Region: GAF; pfam01590 663917008534 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917008535 PAS domain S-box; Region: sensory_box; TIGR00229 663917008536 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 663917008537 putative active site [active] 663917008538 heme pocket [chemical binding]; other site 663917008539 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 663917008540 dimer interface [polypeptide binding]; other site 663917008541 phosphorylation site [posttranslational modification] 663917008542 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 663917008543 ATP binding site [chemical binding]; other site 663917008544 Mg2+ binding site [ion binding]; other site 663917008545 G-X-G motif; other site 663917008546 PBP superfamily domain; Region: PBP_like_2; cl17296 663917008547 Response regulator receiver domain; Region: Response_reg; pfam00072 663917008548 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 663917008549 active site 663917008550 phosphorylation site [posttranslational modification] 663917008551 intermolecular recognition site; other site 663917008552 dimerization interface [polypeptide binding]; other site 663917008553 PAS domain S-box; Region: sensory_box; TIGR00229 663917008554 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 663917008555 putative active site [active] 663917008556 heme pocket [chemical binding]; other site 663917008557 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917008558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917008559 metal binding site [ion binding]; metal-binding site 663917008560 active site 663917008561 I-site; other site 663917008562 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 663917008563 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917008564 active site 663917008565 phosphorylation site [posttranslational modification] 663917008566 intermolecular recognition site; other site 663917008567 dimerization interface [polypeptide binding]; other site 663917008568 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 663917008569 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 663917008570 arginine decarboxylase; Provisional; Region: PRK05354 663917008571 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 663917008572 active site 663917008573 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 663917008574 catalytic residues [active] 663917008575 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 663917008576 conserved nucleotide sequence; KN400_R0088 663917008577 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 663917008578 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 663917008579 dimer interface [polypeptide binding]; other site 663917008580 active site 663917008581 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 663917008582 catalytic residues [active] 663917008583 substrate binding site [chemical binding]; other site 663917008584 conserved nucleotide sequence; KN400_R0089 663917008585 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 663917008586 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 663917008587 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 663917008588 non-specific DNA binding site [nucleotide binding]; other site 663917008589 salt bridge; other site 663917008590 sequence-specific DNA binding site [nucleotide binding]; other site 663917008591 Cupin domain; Region: Cupin_2; pfam07883 663917008592 conserved nucleotide sequence; KN400_R0245 663917008593 conserved nucleotide sequence; KN400_R0246 663917008594 pyrroline-5-carboxylate reductase; Region: PLN02688 663917008595 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 663917008596 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 663917008597 putative active site [active] 663917008598 putative metal binding site [ion binding]; other site 663917008599 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 663917008600 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 663917008601 catalytic residue [active] 663917008602 Maf-like protein; Region: Maf; pfam02545 663917008603 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 663917008604 active site 663917008605 dimer interface [polypeptide binding]; other site 663917008606 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 663917008607 Glucose inhibited division protein A; Region: GIDA; pfam01134 663917008608 conserved nucleotide sequence; KN400_R0247 663917008609 DNA topoisomerase I; Validated; Region: PRK06599 663917008610 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 663917008611 active site 663917008612 interdomain interaction site; other site 663917008613 putative metal-binding site [ion binding]; other site 663917008614 nucleotide binding site [chemical binding]; other site 663917008615 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 663917008616 domain I; other site 663917008617 DNA binding groove [nucleotide binding] 663917008618 phosphate binding site [ion binding]; other site 663917008619 domain II; other site 663917008620 domain III; other site 663917008621 nucleotide binding site [chemical binding]; other site 663917008622 catalytic site [active] 663917008623 domain IV; other site 663917008624 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 663917008625 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 663917008626 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 663917008627 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 663917008628 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 663917008629 DNA protecting protein DprA; Region: dprA; TIGR00732 663917008630 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917008631 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 663917008632 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 663917008633 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 663917008634 TPR motif; other site 663917008635 binding surface 663917008636 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 663917008637 Ligand binding site; other site 663917008638 Putative Catalytic site; other site 663917008639 DXD motif; other site 663917008640 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 663917008641 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 663917008642 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 663917008643 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 663917008644 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 663917008645 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 663917008646 Peptidase family U32; Region: Peptidase_U32; pfam01136 663917008647 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 663917008648 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 663917008649 putative active site [active] 663917008650 putative catalytic site [active] 663917008651 putative Zn binding site [ion binding]; other site 663917008652 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 663917008653 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 663917008654 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 663917008655 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917008656 Zn2+ binding site [ion binding]; other site 663917008657 Mg2+ binding site [ion binding]; other site 663917008658 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 663917008659 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 663917008660 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 663917008661 catalytic core [active] 663917008662 hypothetical protein; Provisional; Region: PRK05170 663917008663 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 663917008664 dimer interface [polypeptide binding]; other site 663917008665 phosphorylation site [posttranslational modification] 663917008666 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 663917008667 ATP binding site [chemical binding]; other site 663917008668 Mg2+ binding site [ion binding]; other site 663917008669 G-X-G motif; other site 663917008670 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 663917008671 dimerization interface [polypeptide binding]; other site 663917008672 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 663917008673 dimer interface [polypeptide binding]; other site 663917008674 phosphorylation site [posttranslational modification] 663917008675 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 663917008676 ATP binding site [chemical binding]; other site 663917008677 Mg2+ binding site [ion binding]; other site 663917008678 G-X-G motif; other site 663917008679 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 663917008680 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 663917008681 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 663917008682 FeS/SAM binding site; other site 663917008683 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 663917008684 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 663917008685 Ligand Binding Site [chemical binding]; other site 663917008686 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 663917008687 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 663917008688 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917008689 catalytic residue [active] 663917008690 Transcriptional regulator; Region: Rrf2; cl17282 663917008691 Rrf2 family protein; Region: rrf2_super; TIGR00738 663917008692 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 663917008693 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 663917008694 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 663917008695 trimer interface [polypeptide binding]; other site 663917008696 active site 663917008697 substrate binding site [chemical binding]; other site 663917008698 CoA binding site [chemical binding]; other site 663917008699 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 663917008700 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 663917008701 active site 663917008702 phosphorylation site [posttranslational modification] 663917008703 intermolecular recognition site; other site 663917008704 dimerization interface [polypeptide binding]; other site 663917008705 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917008706 Zn2+ binding site [ion binding]; other site 663917008707 Mg2+ binding site [ion binding]; other site 663917008708 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917008709 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 663917008710 dimer interface [polypeptide binding]; other site 663917008711 phosphorylation site [posttranslational modification] 663917008712 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 663917008713 ATP binding site [chemical binding]; other site 663917008714 Mg2+ binding site [ion binding]; other site 663917008715 G-X-G motif; other site 663917008716 Response regulator receiver domain; Region: Response_reg; pfam00072 663917008717 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 663917008718 active site 663917008719 phosphorylation site [posttranslational modification] 663917008720 intermolecular recognition site; other site 663917008721 dimerization interface [polypeptide binding]; other site 663917008722 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 663917008723 putative binding surface; other site 663917008724 active site 663917008725 HDOD domain; Region: HDOD; pfam08668 663917008726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917008727 Zn2+ binding site [ion binding]; other site 663917008728 Mg2+ binding site [ion binding]; other site 663917008729 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 663917008730 putative CheA interaction surface; other site 663917008731 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917008732 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 663917008733 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917008734 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 663917008735 dimerization interface [polypeptide binding]; other site 663917008736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917008737 dimer interface [polypeptide binding]; other site 663917008738 putative CheW interface [polypeptide binding]; other site 663917008739 Ribosomally synthesized peptide prototyped by Frankia Franean1_4349; Region: Frankia_peptide; pfam14407 663917008740 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917008741 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 663917008742 active site 663917008743 phosphorylation site [posttranslational modification] 663917008744 intermolecular recognition site; other site 663917008745 dimerization interface [polypeptide binding]; other site 663917008746 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 663917008747 Walker A motif; other site 663917008748 ATP binding site [chemical binding]; other site 663917008749 Walker B motif; other site 663917008750 arginine finger; other site 663917008751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917008752 Isochorismatase family; Region: Isochorismatase; pfam00857 663917008753 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 663917008754 catalytic triad [active] 663917008755 dimer interface [polypeptide binding]; other site 663917008756 conserved cis-peptide bond; other site 663917008757 Patatin-like phospholipase; Region: Patatin; pfam01734 663917008758 active site 663917008759 nucleophile elbow; other site 663917008760 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 663917008761 MarR family; Region: MarR_2; pfam12802 663917008762 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 663917008763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917008764 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 663917008765 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 663917008766 Sel1-like repeats; Region: SEL1; smart00671 663917008767 Sel1-like repeats; Region: SEL1; smart00671 663917008768 Sel1-like repeats; Region: SEL1; smart00671 663917008769 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 663917008770 conserved nucleotide sequence; KN400_R0291 663917008771 SEC-C motif; Region: SEC-C; pfam02810 663917008772 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 663917008773 TPR motif; other site 663917008774 TPR repeat; Region: TPR_11; pfam13414 663917008775 binding surface 663917008776 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 663917008777 binding surface 663917008778 TPR motif; other site 663917008779 TPR repeat; Region: TPR_11; pfam13414 663917008780 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 663917008781 IHF dimer interface [polypeptide binding]; other site 663917008782 IHF - DNA interface [nucleotide binding]; other site 663917008783 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 663917008784 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 663917008785 RNA binding site [nucleotide binding]; other site 663917008786 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 663917008787 RNA binding site [nucleotide binding]; other site 663917008788 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 663917008789 RNA binding site [nucleotide binding]; other site 663917008790 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 663917008791 RNA binding site [nucleotide binding]; other site 663917008792 S1_RPS1_repeat_ec5: 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_ec5; cd05690 663917008793 RNA binding site [nucleotide binding]; other site 663917008794 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; cd00164 663917008795 RNA binding site [nucleotide binding]; other site 663917008796 LytB protein; Region: LYTB; cl00507 663917008797 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 663917008798 cytidylate kinase; Provisional; Region: cmk; PRK00023 663917008799 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 663917008800 CMP-binding site; other site 663917008801 The sites determining sugar specificity; other site 663917008802 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 663917008803 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 663917008804 hinge; other site 663917008805 active site 663917008806 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 663917008807 prephenate dehydrogenase; Validated; Region: PRK08507 663917008808 Chorismate mutase type II; Region: CM_2; pfam01817 663917008809 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 663917008810 Prephenate dehydratase; Region: PDT; pfam00800 663917008811 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 663917008812 putative L-Phe binding site [chemical binding]; other site 663917008813 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 663917008814 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 663917008815 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 663917008816 Walker A motif; other site 663917008817 ATP binding site [chemical binding]; other site 663917008818 Walker B motif; other site 663917008819 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917008820 Rubrerythrin [Energy production and conversion]; Region: COG1592 663917008821 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 663917008822 binuclear metal center [ion binding]; other site 663917008823 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 663917008824 iron binding site [ion binding]; other site 663917008825 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 663917008826 Cation efflux family; Region: Cation_efflux; pfam01545 663917008827 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 663917008828 DHH family; Region: DHH; pfam01368 663917008829 DHHA1 domain; Region: DHHA1; pfam02272 663917008830 TPR repeat; Region: TPR_11; pfam13414 663917008831 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 663917008832 binding surface 663917008833 TPR motif; other site 663917008834 Tetratricopeptide repeat; Region: TPR_12; pfam13424 663917008835 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 663917008836 Protein export membrane protein; Region: SecD_SecF; pfam02355 663917008837 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 663917008838 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 663917008839 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 663917008840 Preprotein translocase subunit; Region: YajC; pfam02699 663917008841 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 663917008842 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 663917008843 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 663917008844 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 663917008845 Stage II sporulation protein; Region: SpoIID; pfam08486 663917008846 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 663917008847 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917008848 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 663917008849 dimerization interface [polypeptide binding]; other site 663917008850 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917008851 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917008852 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 663917008853 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917008854 Zn2+ binding site [ion binding]; other site 663917008855 Mg2+ binding site [ion binding]; other site 663917008856 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 663917008857 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 663917008858 Walker A/P-loop; other site 663917008859 ATP binding site [chemical binding]; other site 663917008860 Q-loop/lid; other site 663917008861 ABC transporter signature motif; other site 663917008862 Walker B; other site 663917008863 D-loop; other site 663917008864 H-loop/switch region; other site 663917008865 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 663917008866 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 663917008867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 663917008868 Walker A/P-loop; other site 663917008869 ATP binding site [chemical binding]; other site 663917008870 Q-loop/lid; other site 663917008871 ABC transporter signature motif; other site 663917008872 Walker B; other site 663917008873 D-loop; other site 663917008874 H-loop/switch region; other site 663917008875 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 663917008876 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 663917008877 dimerization interface [polypeptide binding]; other site 663917008878 putative DNA binding site [nucleotide binding]; other site 663917008879 putative Zn2+ binding site [ion binding]; other site 663917008880 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 663917008881 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 663917008882 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 663917008883 putative RNA binding site [nucleotide binding]; other site 663917008884 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 663917008885 S-adenosylmethionine binding site [chemical binding]; other site 663917008886 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 663917008887 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 663917008888 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 663917008889 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 663917008890 TAP-like protein; Region: Abhydrolase_4; pfam08386 663917008891 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 663917008892 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 663917008893 substrate-cofactor binding pocket; other site 663917008894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917008895 catalytic residue [active] 663917008896 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 663917008897 active site 663917008898 metal binding site [ion binding]; metal-binding site 663917008899 Uncharacterized conserved protein [Function unknown]; Region: COG0432 663917008900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917008901 metal binding site [ion binding]; metal-binding site 663917008902 active site 663917008903 I-site; other site 663917008904 The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of...; Region: ML; cl00274 663917008905 Hemerythrin; Region: Hemerythrin; cd12107 663917008906 Fe binding site [ion binding]; other site 663917008907 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_5; cd11352 663917008908 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 663917008909 active site 663917008910 catalytic site [active] 663917008911 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 663917008912 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 663917008913 NAD(P) binding site [chemical binding]; other site 663917008914 Protein of unknown function (DUF456); Region: DUF456; pfam04306 663917008915 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 663917008916 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 663917008917 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 663917008918 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917008919 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 663917008920 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 663917008921 putative NAD(P) binding site [chemical binding]; other site 663917008922 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 663917008923 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917008924 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 663917008925 substrate binding pocket [chemical binding]; other site 663917008926 membrane-bound complex binding site; other site 663917008927 hinge residues; other site 663917008928 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 663917008929 dimer interface [polypeptide binding]; other site 663917008930 conserved gate region; other site 663917008931 putative PBP binding loops; other site 663917008932 ABC-ATPase subunit interface; other site 663917008933 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 663917008934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917008935 Walker A/P-loop; other site 663917008936 ATP binding site [chemical binding]; other site 663917008937 Q-loop/lid; other site 663917008938 ABC transporter signature motif; other site 663917008939 Walker B; other site 663917008940 D-loop; other site 663917008941 H-loop/switch region; other site 663917008942 PAP2 superfamily; Region: PAP2; pfam01569 663917008943 HAMP domain; Region: HAMP; pfam00672 663917008944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917008945 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917008946 dimer interface [polypeptide binding]; other site 663917008947 putative CheW interface [polypeptide binding]; other site 663917008948 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 663917008949 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 663917008950 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 663917008951 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 663917008952 TPP-binding site [chemical binding]; other site 663917008953 tetramer interface [polypeptide binding]; other site 663917008954 heterodimer interface [polypeptide binding]; other site 663917008955 phosphorylation loop region [posttranslational modification] 663917008956 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 663917008957 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 663917008958 alpha subunit interface [polypeptide binding]; other site 663917008959 TPP binding site [chemical binding]; other site 663917008960 heterodimer interface [polypeptide binding]; other site 663917008961 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917008962 conserved nucleotide sequence; KN400_R0090 663917008963 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 663917008964 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 663917008965 E3 interaction surface; other site 663917008966 lipoyl attachment site [posttranslational modification]; other site 663917008967 e3 binding domain; Region: E3_binding; pfam02817 663917008968 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 663917008969 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 663917008970 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 663917008971 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 663917008972 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 663917008973 Hemerythrin-like domain; Region: Hr-like; cd12108 663917008974 Fe binding site [ion binding]; other site 663917008975 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 663917008976 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 663917008977 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 663917008978 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 663917008979 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917008980 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917008981 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917008982 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917008983 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917008984 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 663917008985 putative active site [active] 663917008986 heme pocket [chemical binding]; other site 663917008987 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 663917008988 dimer interface [polypeptide binding]; other site 663917008989 phosphorylation site [posttranslational modification] 663917008990 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 663917008991 ATP binding site [chemical binding]; other site 663917008992 Mg2+ binding site [ion binding]; other site 663917008993 G-X-G motif; other site 663917008994 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 663917008995 dimer interface [polypeptide binding]; other site 663917008996 phosphorylation site [posttranslational modification] 663917008997 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 663917008998 ATP binding site [chemical binding]; other site 663917008999 G-X-G motif; other site 663917009000 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 663917009001 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 663917009002 DNA binding residues [nucleotide binding] 663917009003 dimerization interface [polypeptide binding]; other site 663917009004 SnoaL-like domain; Region: SnoaL_3; pfam13474 663917009005 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 663917009006 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 663917009007 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 663917009008 conserved nucleotide sequence; KN400_R0248 663917009009 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 663917009010 active site 663917009011 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 663917009012 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 663917009013 EamA-like transporter family; Region: EamA; pfam00892 663917009014 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 663917009015 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 663917009016 putative dimer interface [polypeptide binding]; other site 663917009017 Protein of unknown function, DUF606; Region: DUF606; pfam04657 663917009018 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 663917009019 4Fe-4S binding domain; Region: Fer4_5; pfam12801 663917009020 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 663917009021 Uncharacterized conserved protein [Function unknown]; Region: COG2006 663917009022 Domain of unknown function (DUF362); Region: DUF362; pfam04015 663917009023 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 663917009024 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 663917009025 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 663917009026 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 663917009027 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 663917009028 putative active site [active] 663917009029 metal binding site [ion binding]; metal-binding site 663917009030 Uncharacterized conserved protein [Function unknown]; Region: COG2353 663917009031 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 663917009032 MarR family; Region: MarR; pfam01047 663917009033 MarR family; Region: MarR_2; cl17246 663917009034 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 663917009035 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 663917009036 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 663917009037 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 663917009038 Walker A/P-loop; other site 663917009039 ATP binding site [chemical binding]; other site 663917009040 Q-loop/lid; other site 663917009041 ABC transporter signature motif; other site 663917009042 Walker B; other site 663917009043 D-loop; other site 663917009044 H-loop/switch region; other site 663917009045 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 663917009046 Walker A/P-loop; other site 663917009047 ATP binding site [chemical binding]; other site 663917009048 Q-loop/lid; other site 663917009049 ABC transporter signature motif; other site 663917009050 Walker B; other site 663917009051 D-loop; other site 663917009052 H-loop/switch region; other site 663917009053 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 663917009054 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 663917009055 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 663917009056 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917009057 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917009058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 663917009059 Protein of unknown function (DUF330); Region: DUF330; pfam03886 663917009060 paraquat-inducible protein B; Provisional; Region: PRK10807 663917009061 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 663917009062 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 663917009063 Walker A/P-loop; other site 663917009064 ATP binding site [chemical binding]; other site 663917009065 Q-loop/lid; other site 663917009066 ABC transporter signature motif; other site 663917009067 Walker B; other site 663917009068 D-loop; other site 663917009069 H-loop/switch region; other site 663917009070 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 663917009071 Permease; Region: Permease; pfam02405 663917009072 VacJ like lipoprotein; Region: VacJ; cl01073 663917009073 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 663917009074 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 663917009075 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 663917009076 Response regulator receiver domain; Region: Response_reg; pfam00072 663917009077 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 663917009078 active site 663917009079 phosphorylation site [posttranslational modification] 663917009080 intermolecular recognition site; other site 663917009081 dimerization interface [polypeptide binding]; other site 663917009082 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 663917009083 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 663917009084 Protein export membrane protein; Region: SecD_SecF; cl14618 663917009085 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 663917009086 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917009087 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917009088 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917009089 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917009090 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; cl00399 663917009091 MoaE homodimer interface [polypeptide binding]; other site 663917009092 MoaD interaction [polypeptide binding]; other site 663917009093 active site residues [active] 663917009094 PBP superfamily domain; Region: PBP_like_2; pfam12849 663917009095 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 663917009096 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 663917009097 dimer interface [polypeptide binding]; other site 663917009098 conserved gate region; other site 663917009099 putative PBP binding loops; other site 663917009100 ABC-ATPase subunit interface; other site 663917009101 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 663917009102 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 663917009103 Walker A/P-loop; other site 663917009104 ATP binding site [chemical binding]; other site 663917009105 Q-loop/lid; other site 663917009106 ABC transporter signature motif; other site 663917009107 Walker B; other site 663917009108 D-loop; other site 663917009109 H-loop/switch region; other site 663917009110 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 663917009111 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 663917009112 dimer interface [polypeptide binding]; other site 663917009113 putative functional site; other site 663917009114 putative MPT binding site; other site 663917009115 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 663917009116 trimer interface [polypeptide binding]; other site 663917009117 dimer interface [polypeptide binding]; other site 663917009118 putative active site [active] 663917009119 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 663917009120 MPT binding site; other site 663917009121 trimer interface [polypeptide binding]; other site 663917009122 conserved nucleotide sequence; KN400_R0249 663917009123 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 663917009124 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 663917009125 propionate/acetate kinase; Provisional; Region: PRK12379 663917009126 conserved nucleotide sequence; KN400_R0250 663917009127 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 663917009128 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917009129 palindrome; KN400_R0251 663917009130 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 663917009131 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 663917009132 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 663917009133 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 663917009134 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 663917009135 trRNA_4; KN400_R0252 663917009136 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 663917009137 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 663917009138 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 663917009139 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 663917009140 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 663917009141 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 663917009142 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 663917009143 Interdomain contacts; other site 663917009144 Cytokine receptor motif; other site 663917009145 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 663917009146 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 663917009147 nickel binding site [ion binding]; other site 663917009148 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 663917009149 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 663917009150 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 663917009151 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 663917009152 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 663917009153 catalytic loop [active] 663917009154 iron binding site [ion binding]; other site 663917009155 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 663917009156 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 663917009157 dimer interface [polypeptide binding]; other site 663917009158 [2Fe-2S] cluster binding site [ion binding]; other site 663917009159 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 663917009160 SLBB domain; Region: SLBB; pfam10531 663917009161 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 663917009162 bidirectional hydrogenase complex protein HoxE; Reviewed; Region: PRK07571 663917009163 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 663917009164 putative dimer interface [polypeptide binding]; other site 663917009165 [2Fe-2S] cluster binding site [ion binding]; other site 663917009166 TMAO/DMSO reductase; Reviewed; Region: PRK05363 663917009167 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 663917009168 Moco binding site; other site 663917009169 metal coordination site [ion binding]; other site 663917009170 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 663917009171 conserved nucleotide sequence; KN400_R0253 663917009172 conserved nucleotide sequence; KN400_R0254 663917009173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917009174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917009175 conserved nucleotide sequence; KN400_R0255 663917009176 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917009177 conserved nucleotide sequence; KN400_R0256 663917009178 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917009179 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917009180 Cytochrome c; Region: Cytochrom_C; cl11414 663917009181 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 663917009182 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 663917009183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 663917009184 putative substrate translocation pore; other site 663917009185 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 663917009186 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 663917009187 Walker A motif; other site 663917009188 ATP binding site [chemical binding]; other site 663917009189 Walker B motif; other site 663917009190 arginine finger; other site 663917009191 Helix-turn-helix domain; Region: HTH_17; cl17695 663917009192 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 663917009193 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 663917009194 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 663917009195 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 663917009196 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; cl17736 663917009197 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 663917009198 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 663917009199 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917009200 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 663917009201 active site 663917009202 phosphorylation site [posttranslational modification] 663917009203 intermolecular recognition site; other site 663917009204 dimerization interface [polypeptide binding]; other site 663917009205 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 663917009206 Walker A motif; other site 663917009207 ATP binding site [chemical binding]; other site 663917009208 Walker B motif; other site 663917009209 arginine finger; other site 663917009210 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917009211 conserved nucleotide sequence; KN400_R0092 663917009212 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917009213 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 663917009214 substrate binding pocket [chemical binding]; other site 663917009215 membrane-bound complex binding site; other site 663917009216 hinge residues; other site 663917009217 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 663917009218 dimer interface [polypeptide binding]; other site 663917009219 phosphorylation site [posttranslational modification] 663917009220 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 663917009221 ATP binding site [chemical binding]; other site 663917009222 Mg2+ binding site [ion binding]; other site 663917009223 G-X-G motif; other site 663917009224 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; cl02542 663917009225 HSP70 interaction site [polypeptide binding]; other site 663917009226 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 663917009227 CheB methylesterase; Region: CheB_methylest; pfam01339 663917009228 Response regulator receiver domain; Region: Response_reg; pfam00072 663917009229 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 663917009230 active site 663917009231 phosphorylation site [posttranslational modification] 663917009232 intermolecular recognition site; other site 663917009233 dimerization interface [polypeptide binding]; other site 663917009234 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 663917009235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917009236 Walker A/P-loop; other site 663917009237 ATP binding site [chemical binding]; other site 663917009238 Q-loop/lid; other site 663917009239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917009240 ABC transporter signature motif; other site 663917009241 Walker B; other site 663917009242 D-loop; other site 663917009243 H-loop/switch region; other site 663917009244 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 663917009245 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 663917009246 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 663917009247 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 663917009248 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 663917009249 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 663917009250 TrkA-N domain; Region: TrkA_N; pfam02254 663917009251 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 663917009252 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 663917009253 conserved nucleotide sequence; KN400_R0257 663917009254 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 663917009255 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 663917009256 glycerol kinase; Provisional; Region: glpK; PRK00047 663917009257 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 663917009258 N- and C-terminal domain interface [polypeptide binding]; other site 663917009259 active site 663917009260 MgATP binding site [chemical binding]; other site 663917009261 catalytic site [active] 663917009262 metal binding site [ion binding]; metal-binding site 663917009263 glycerol binding site [chemical binding]; other site 663917009264 homotetramer interface [polypeptide binding]; other site 663917009265 homodimer interface [polypeptide binding]; other site 663917009266 FBP binding site [chemical binding]; other site 663917009267 protein IIAGlc interface [polypeptide binding]; other site 663917009268 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 663917009269 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 663917009270 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 663917009271 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 663917009272 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 663917009273 active site 663917009274 metal binding site [ion binding]; metal-binding site 663917009275 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 663917009276 Transposase IS200 like; Region: Y1_Tnp; pfam01797 663917009277 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 663917009278 DnaA box-binding interface [nucleotide binding]; other site 663917009279 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 663917009280 Lysine efflux permease [General function prediction only]; Region: COG1279 663917009281 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 663917009282 Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators; Region: HTH_Cfa-like_unk; cd04790 663917009283 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 663917009284 DNA binding residues [nucleotide binding] 663917009285 putative dimer interface [polypeptide binding]; other site 663917009286 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 663917009287 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 663917009288 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917009289 conserved nucleotide sequence; KN400_R0258 663917009290 multidrug efflux protein; Reviewed; Region: PRK09579 663917009291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 663917009292 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 663917009293 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 663917009294 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917009295 catalytic residue [active] 663917009296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 663917009297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917009298 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 663917009299 dimerization interface [polypeptide binding]; other site 663917009300 OsmC-like protein; Region: OsmC; pfam02566 663917009301 PAS domain S-box; Region: sensory_box; TIGR00229 663917009302 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 663917009303 putative active site [active] 663917009304 heme pocket [chemical binding]; other site 663917009305 PAS domain S-box; Region: sensory_box; TIGR00229 663917009306 PAS domain; Region: PAS; smart00091 663917009307 PAS fold; Region: PAS_4; pfam08448 663917009308 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 663917009309 putative active site [active] 663917009310 heme pocket [chemical binding]; other site 663917009311 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 663917009312 dimer interface [polypeptide binding]; other site 663917009313 phosphorylation site [posttranslational modification] 663917009314 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 663917009315 ATP binding site [chemical binding]; other site 663917009316 Mg2+ binding site [ion binding]; other site 663917009317 G-X-G motif; other site 663917009318 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 663917009319 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 663917009320 S-adenosylmethionine binding site [chemical binding]; other site 663917009321 conserved nucleotide sequence; KN400_R0259 663917009322 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 663917009323 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 663917009324 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 663917009325 Cysteine-rich domain; Region: CCG; pfam02754 663917009326 Cysteine-rich domain; Region: CCG; pfam02754 663917009327 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 663917009328 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 663917009329 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 663917009330 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 663917009331 Ligand binding site [chemical binding]; other site 663917009332 Electron transfer flavoprotein domain; Region: ETF; pfam01012 663917009333 putative acetyltransferase; Provisional; Region: PRK03624 663917009334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 663917009335 Coenzyme A binding pocket [chemical binding]; other site 663917009336 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 663917009337 Radical SAM superfamily; Region: Radical_SAM; pfam04055 663917009338 FeS/SAM binding site; other site 663917009339 ADP-ribosyl-[dinitrogen reductase] hydrolase; Region: dinitro_DRAG; TIGR02662 663917009340 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917009341 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 663917009342 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 663917009343 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 663917009344 4Fe-4S binding domain; Region: Fer4; cl02805 663917009345 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 663917009346 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 663917009347 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 663917009348 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 663917009349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 663917009350 Peptidase M15; Region: Peptidase_M15_3; cl01194 663917009351 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 663917009352 ferric uptake regulator; Provisional; Region: fur; PRK09462 663917009353 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 663917009354 metal binding site 2 [ion binding]; metal-binding site 663917009355 putative DNA binding helix; other site 663917009356 metal binding site 1 [ion binding]; metal-binding site 663917009357 dimer interface [polypeptide binding]; other site 663917009358 structural Zn2+ binding site [ion binding]; other site 663917009359 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 663917009360 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 663917009361 tetramer interface [polypeptide binding]; other site 663917009362 heme binding pocket [chemical binding]; other site 663917009363 NADPH binding site [chemical binding]; other site 663917009364 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 663917009365 Cytochrome c; Region: Cytochrom_C; pfam00034 663917009366 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 663917009367 catalytic residues [active] 663917009368 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 663917009369 Rubrerythrin [Energy production and conversion]; Region: COG1592 663917009370 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 663917009371 binuclear metal center [ion binding]; other site 663917009372 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 663917009373 iron binding site [ion binding]; other site 663917009374 PAS domain S-box; Region: sensory_box; TIGR00229 663917009375 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 663917009376 putative active site [active] 663917009377 heme pocket [chemical binding]; other site 663917009378 PAS domain S-box; Region: sensory_box; TIGR00229 663917009379 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 663917009380 putative active site [active] 663917009381 heme pocket [chemical binding]; other site 663917009382 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 663917009383 PAS fold; Region: PAS_3; pfam08447 663917009384 putative active site [active] 663917009385 heme pocket [chemical binding]; other site 663917009386 PAS fold; Region: PAS_3; pfam08447 663917009387 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 663917009388 heme pocket [chemical binding]; other site 663917009389 putative active site [active] 663917009390 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 663917009391 dimer interface [polypeptide binding]; other site 663917009392 phosphorylation site [posttranslational modification] 663917009393 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 663917009394 ATP binding site [chemical binding]; other site 663917009395 Mg2+ binding site [ion binding]; other site 663917009396 G-X-G motif; other site 663917009397 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 663917009398 PAS fold; Region: PAS_3; pfam08447 663917009399 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 663917009400 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 663917009401 putative active site [active] 663917009402 heme pocket [chemical binding]; other site 663917009403 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 663917009404 dimer interface [polypeptide binding]; other site 663917009405 phosphorylation site [posttranslational modification] 663917009406 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 663917009407 ATP binding site [chemical binding]; other site 663917009408 Mg2+ binding site [ion binding]; other site 663917009409 G-X-G motif; other site 663917009410 Response regulator receiver domain; Region: Response_reg; pfam00072 663917009411 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 663917009412 active site 663917009413 phosphorylation site [posttranslational modification] 663917009414 intermolecular recognition site; other site 663917009415 dimerization interface [polypeptide binding]; other site 663917009416 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 663917009417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917009418 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 663917009419 putative dimerization interface [polypeptide binding]; other site 663917009420 Predicted membrane protein [Function unknown]; Region: COG2855 663917009421 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 663917009422 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 663917009423 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 663917009424 MoFe protein beta/alpha subunit interactions; other site 663917009425 Beta subunit P cluster binding residues; other site 663917009426 MoFe protein beta subunit/Fe protein contacts; other site 663917009427 MoFe protein dimer/ dimer interactions; other site 663917009428 conserved nucleotide sequence; KN400_R0093 663917009429 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 663917009430 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 663917009431 MoFe protein alpha/beta subunit interactions; other site 663917009432 Alpha subunit P cluster binding residues; other site 663917009433 FeMoco binding residues [chemical binding]; other site 663917009434 MoFe protein alpha subunit/Fe protein contacts; other site 663917009435 MoFe protein dimer/ dimer interactions; other site 663917009436 conserved nucleotide sequence; KN400_R0094 663917009437 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 663917009438 nitrogenase iron protein; Region: nifH; TIGR01287 663917009439 Nucleotide-binding sites [chemical binding]; other site 663917009440 Walker A motif; other site 663917009441 Switch I region of nucleotide binding site; other site 663917009442 Fe4S4 binding sites [ion binding]; other site 663917009443 Switch II region of nucleotide binding site; other site 663917009444 conserved nucleotide sequence; KN400_R0095 663917009445 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 663917009446 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 663917009447 active site 663917009448 phosphorylation site [posttranslational modification] 663917009449 intermolecular recognition site; other site 663917009450 dimerization interface [polypeptide binding]; other site 663917009451 ANTAR domain; Region: ANTAR; pfam03861 663917009452 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 663917009453 HlyD family secretion protein; Region: HlyD_3; pfam13437 663917009454 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 663917009455 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 663917009456 Walker A/P-loop; other site 663917009457 ATP binding site [chemical binding]; other site 663917009458 Q-loop/lid; other site 663917009459 ABC transporter signature motif; other site 663917009460 Walker B; other site 663917009461 D-loop; other site 663917009462 H-loop/switch region; other site 663917009463 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 663917009464 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 663917009465 Walker A/P-loop; other site 663917009466 ATP binding site [chemical binding]; other site 663917009467 Q-loop/lid; other site 663917009468 ABC transporter signature motif; other site 663917009469 Walker B; other site 663917009470 D-loop; other site 663917009471 H-loop/switch region; other site 663917009472 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 663917009473 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 663917009474 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 663917009475 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 663917009476 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 663917009477 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 663917009478 dinuclear metal binding motif [ion binding]; other site 663917009479 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917009480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917009481 active site 663917009482 I-site; other site 663917009483 metal binding site [ion binding]; metal-binding site 663917009484 photolyase PhrII; Region: phr2; TIGR00591 663917009485 DNA photolyase; Region: DNA_photolyase; pfam00875 663917009486 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 663917009487 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 663917009488 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 663917009489 alphaNTD homodimer interface [polypeptide binding]; other site 663917009490 alphaNTD - beta interaction site [polypeptide binding]; other site 663917009491 alphaNTD - beta' interaction site [polypeptide binding]; other site 663917009492 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 663917009493 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 663917009494 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 663917009495 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 663917009496 RNA binding surface [nucleotide binding]; other site 663917009497 30S ribosomal protein S11; Validated; Region: PRK05309 663917009498 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 663917009499 30S ribosomal protein S13; Region: bact_S13; TIGR03631 663917009500 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 663917009501 active site 663917009502 adenylate kinase; Reviewed; Region: adk; PRK00279 663917009503 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 663917009504 AMP-binding site [chemical binding]; other site 663917009505 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 663917009506 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 663917009507 SecY translocase; Region: SecY; pfam00344 663917009508 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 663917009509 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 663917009510 23S rRNA binding site [nucleotide binding]; other site 663917009511 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 663917009512 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 663917009513 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 663917009514 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 663917009515 5S rRNA interface [nucleotide binding]; other site 663917009516 L27 interface [polypeptide binding]; other site 663917009517 23S rRNA interface [nucleotide binding]; other site 663917009518 L5 interface [polypeptide binding]; other site 663917009519 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 663917009520 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 663917009521 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 663917009522 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 663917009523 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 663917009524 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 663917009525 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 663917009526 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 663917009527 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 663917009528 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 663917009529 RNA binding site [nucleotide binding]; other site 663917009530 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 663917009531 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 663917009532 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 663917009533 23S rRNA interface [nucleotide binding]; other site 663917009534 putative translocon interaction site; other site 663917009535 signal recognition particle (SRP54) interaction site; other site 663917009536 L23 interface [polypeptide binding]; other site 663917009537 trigger factor interaction site; other site 663917009538 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 663917009539 23S rRNA interface [nucleotide binding]; other site 663917009540 5S rRNA interface [nucleotide binding]; other site 663917009541 putative antibiotic binding site [chemical binding]; other site 663917009542 L25 interface [polypeptide binding]; other site 663917009543 L27 interface [polypeptide binding]; other site 663917009544 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 663917009545 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 663917009546 G-X-X-G motif; other site 663917009547 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 663917009548 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 663917009549 putative translocon binding site; other site 663917009550 protein-rRNA interface [nucleotide binding]; other site 663917009551 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 663917009552 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 663917009553 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 663917009554 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 663917009555 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 663917009556 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 663917009557 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 663917009558 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 663917009559 elongation factor Tu; Reviewed; Region: PRK00049 663917009560 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 663917009561 G1 box; other site 663917009562 GEF interaction site [polypeptide binding]; other site 663917009563 GTP/Mg2+ binding site [chemical binding]; other site 663917009564 Switch I region; other site 663917009565 G2 box; other site 663917009566 G3 box; other site 663917009567 Switch II region; other site 663917009568 G4 box; other site 663917009569 G5 box; other site 663917009570 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 663917009571 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 663917009572 Antibiotic Binding Site [chemical binding]; other site 663917009573 elongation factor G; Reviewed; Region: PRK00007 663917009574 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 663917009575 G1 box; other site 663917009576 putative GEF interaction site [polypeptide binding]; other site 663917009577 GTP/Mg2+ binding site [chemical binding]; other site 663917009578 Switch I region; other site 663917009579 G2 box; other site 663917009580 G3 box; other site 663917009581 Switch II region; other site 663917009582 G4 box; other site 663917009583 G5 box; other site 663917009584 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 663917009585 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 663917009586 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 663917009587 30S ribosomal protein S7; Validated; Region: PRK05302 663917009588 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 663917009589 S17 interaction site [polypeptide binding]; other site 663917009590 S8 interaction site; other site 663917009591 16S rRNA interaction site [nucleotide binding]; other site 663917009592 streptomycin interaction site [chemical binding]; other site 663917009593 23S rRNA interaction site [nucleotide binding]; other site 663917009594 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 663917009595 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 663917009596 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 663917009597 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 663917009598 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 663917009599 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 663917009600 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 663917009601 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 663917009602 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 663917009603 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 663917009604 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 663917009605 DNA binding site [nucleotide binding] 663917009606 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 663917009607 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 663917009608 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; cl17585 663917009609 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 663917009610 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 663917009611 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 663917009612 RPB12 interaction site [polypeptide binding]; other site 663917009613 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 663917009614 RPB3 interaction site [polypeptide binding]; other site 663917009615 RPB1 interaction site [polypeptide binding]; other site 663917009616 RPB11 interaction site [polypeptide binding]; other site 663917009617 RPB10 interaction site [polypeptide binding]; other site 663917009618 conserved nucleotide sequence; KN400_R0260 663917009619 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 663917009620 L11 interface [polypeptide binding]; other site 663917009621 putative EF-Tu interaction site [polypeptide binding]; other site 663917009622 putative EF-G interaction site [polypeptide binding]; other site 663917009623 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 663917009624 23S rRNA interface [nucleotide binding]; other site 663917009625 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 663917009626 conserved nucleotide sequence; KN400_R0261 663917009627 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 663917009628 mRNA/rRNA interface [nucleotide binding]; other site 663917009629 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 663917009630 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 663917009631 23S rRNA interface [nucleotide binding]; other site 663917009632 L7/L12 interface [polypeptide binding]; other site 663917009633 putative thiostrepton binding site; other site 663917009634 L25 interface [polypeptide binding]; other site 663917009635 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 663917009636 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 663917009637 putative homodimer interface [polypeptide binding]; other site 663917009638 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 663917009639 heterodimer interface [polypeptide binding]; other site 663917009640 homodimer interface [polypeptide binding]; other site 663917009641 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 663917009642 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 663917009643 elongation factor Tu; Reviewed; Region: PRK00049 663917009644 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 663917009645 G1 box; other site 663917009646 GEF interaction site [polypeptide binding]; other site 663917009647 GTP/Mg2+ binding site [chemical binding]; other site 663917009648 Switch I region; other site 663917009649 G2 box; other site 663917009650 G3 box; other site 663917009651 Switch II region; other site 663917009652 G4 box; other site 663917009653 G5 box; other site 663917009654 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 663917009655 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 663917009656 Antibiotic Binding Site [chemical binding]; other site 663917009657 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 663917009658 Ligand binding site [chemical binding]; other site 663917009659 Electron transfer flavoprotein domain; Region: ETF; pfam01012 663917009660 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 663917009661 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 663917009662 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 663917009663 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 663917009664 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 663917009665 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 663917009666 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 663917009667 23S rRNA interface [nucleotide binding]; other site 663917009668 L3 interface [polypeptide binding]; other site 663917009669 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 663917009670 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 663917009671 dimerization interface 3.5A [polypeptide binding]; other site 663917009672 active site 663917009673 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 663917009674 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 663917009675 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 663917009676 tartrate dehydrogenase; Region: TTC; TIGR02089 663917009677 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 663917009678 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 663917009679 ResB-like family; Region: ResB; pfam05140 663917009680 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 663917009681 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917009682 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 663917009683 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917009684 NHL repeat; Region: NHL; pfam01436 663917009685 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917009686 heme-binding residues [chemical binding]; other site 663917009687 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917009688 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917009689 heme-binding residues [chemical binding]; other site 663917009690 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917009691 heme-binding residues [chemical binding]; other site 663917009692 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917009693 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 663917009694 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 663917009695 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 663917009696 FeS/SAM binding site; other site 663917009697 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 663917009698 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 663917009699 ResB-like family; Region: ResB; pfam05140 663917009700 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 663917009701 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 663917009702 Sel1-like repeats; Region: SEL1; smart00671 663917009703 Sel1-like repeats; Region: SEL1; smart00671 663917009704 Sel1-like repeats; Region: SEL1; smart00671 663917009705 Sel1-like repeats; Region: SEL1; smart00671 663917009706 Sel1-like repeats; Region: SEL1; smart00671 663917009707 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 663917009708 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 663917009709 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 663917009710 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 663917009711 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 663917009712 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009713 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009714 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009715 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009716 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 663917009717 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 663917009718 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 663917009719 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009720 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 663917009721 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 663917009722 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 663917009723 TPR motif; other site 663917009724 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 663917009725 GeoRSP system SPASM domain protein; Region: GeoRSP_SPASM; TIGR04304 663917009726 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 663917009727 GeoRSP system radical SAM/SPASM protein; Region: GeoRSP_rSAM; TIGR04303 663917009728 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 663917009729 FeS/SAM binding site; other site 663917009730 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 663917009731 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 663917009732 Cupin domain; Region: Cupin_2; pfam07883 663917009733 Predicted permease; Region: DUF318; cl17795 663917009734 ResB-like family; Region: ResB; pfam05140 663917009735 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 663917009736 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 663917009737 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 663917009738 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 663917009739 Right handed beta helix region; Region: Beta_helix; pfam13229 663917009740 Right handed beta helix region; Region: Beta_helix; pfam13229 663917009741 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009742 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 663917009743 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917009744 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 663917009745 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 663917009746 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917009747 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 663917009748 active site 663917009749 phosphorylation site [posttranslational modification] 663917009750 intermolecular recognition site; other site 663917009751 dimerization interface [polypeptide binding]; other site 663917009752 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 663917009753 Walker A motif; other site 663917009754 ATP binding site [chemical binding]; other site 663917009755 Walker B motif; other site 663917009756 arginine finger; other site 663917009757 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917009758 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917009759 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 663917009760 dimerization interface [polypeptide binding]; other site 663917009761 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 663917009762 dimer interface [polypeptide binding]; other site 663917009763 phosphorylation site [posttranslational modification] 663917009764 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 663917009765 ATP binding site [chemical binding]; other site 663917009766 Mg2+ binding site [ion binding]; other site 663917009767 G-X-G motif; other site 663917009768 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 663917009769 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 663917009770 PYR/PP interface [polypeptide binding]; other site 663917009771 dimer interface [polypeptide binding]; other site 663917009772 TPP binding site [chemical binding]; other site 663917009773 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917009774 transketolase; Reviewed; Region: PRK05899 663917009775 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 663917009776 TPP-binding site [chemical binding]; other site 663917009777 dimer interface [polypeptide binding]; other site 663917009778 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 663917009779 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 663917009780 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 663917009781 substrate binding pocket [chemical binding]; other site 663917009782 dimer interface [polypeptide binding]; other site 663917009783 inhibitor binding site; inhibition site 663917009784 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 663917009785 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 663917009786 B12 binding site [chemical binding]; other site 663917009787 cobalt ligand [ion binding]; other site 663917009788 Sporulation and spore germination; Region: Germane; pfam10646 663917009789 glutamate racemase; Provisional; Region: PRK00865 663917009790 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 663917009791 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 663917009792 Predicted metallopeptidase [General function prediction only]; Region: COG4900 663917009793 Hemerythrin; Region: Hemerythrin; cd12107 663917009794 Fe binding site [ion binding]; other site 663917009795 Cytochrome c; Region: Cytochrom_C; cl11414 663917009796 Cytochrome c; Region: Cytochrom_C; cl11414 663917009797 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 663917009798 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 663917009799 heme bH binding site [chemical binding]; other site 663917009800 intrachain domain interface; other site 663917009801 Qi binding site; other site 663917009802 heme bL binding site [chemical binding]; other site 663917009803 interchain domain interface [polypeptide binding]; other site 663917009804 Qo binding site; other site 663917009805 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 663917009806 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 663917009807 iron-sulfur cluster [ion binding]; other site 663917009808 [2Fe-2S] cluster binding site [ion binding]; other site 663917009809 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917009810 heme-binding residues [chemical binding]; other site 663917009811 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 663917009812 heme-binding residues [chemical binding]; other site 663917009813 conserved nucleotide sequence; KN400_R0262 663917009814 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917009815 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 663917009816 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 663917009817 active site residue [active] 663917009818 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 663917009819 active site residue [active] 663917009820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 663917009821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 663917009822 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 663917009823 dimerization interface [polypeptide binding]; other site 663917009824 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 663917009825 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 663917009826 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 663917009827 dimerization interface [polypeptide binding]; other site 663917009828 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917009829 dimer interface [polypeptide binding]; other site 663917009830 putative CheW interface [polypeptide binding]; other site 663917009831 conserved nucleotide sequence; KN400_R0263 663917009832 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 663917009833 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 663917009834 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 663917009835 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 663917009836 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 663917009837 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 663917009838 active site 663917009839 phosphorylation site [posttranslational modification] 663917009840 intermolecular recognition site; other site 663917009841 dimerization interface [polypeptide binding]; other site 663917009842 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 663917009843 DNA binding site [nucleotide binding] 663917009844 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 663917009845 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 663917009846 dimer interface [polypeptide binding]; other site 663917009847 phosphorylation site [posttranslational modification] 663917009848 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 663917009849 ATP binding site [chemical binding]; other site 663917009850 Mg2+ binding site [ion binding]; other site 663917009851 G-X-G motif; other site 663917009852 conserved nucleotide sequence; KN400_R0264 663917009853 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 663917009854 Sulfatase; Region: Sulfatase; pfam00884 663917009855 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 663917009856 active site 663917009857 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 663917009858 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 663917009859 dimer interface [polypeptide binding]; other site 663917009860 conserved gate region; other site 663917009861 putative PBP binding loops; other site 663917009862 ABC-ATPase subunit interface; other site 663917009863 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 663917009864 putative PBP binding loops; other site 663917009865 ABC-ATPase subunit interface; other site 663917009866 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 663917009867 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 663917009868 Walker A/P-loop; other site 663917009869 ATP binding site [chemical binding]; other site 663917009870 Q-loop/lid; other site 663917009871 ABC transporter signature motif; other site 663917009872 Walker B; other site 663917009873 D-loop; other site 663917009874 H-loop/switch region; other site 663917009875 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 663917009876 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 663917009877 dimerization interface [polypeptide binding]; other site 663917009878 putative DNA binding site [nucleotide binding]; other site 663917009879 putative Zn2+ binding site [ion binding]; other site 663917009880 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 663917009881 Low molecular weight phosphatase family; Region: LMWPc; cd00115 663917009882 active site 663917009883 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 663917009884 arsenical-resistance protein; Region: acr3; TIGR00832 663917009885 Predicted permeases [General function prediction only]; Region: COG0701 663917009886 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 663917009887 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 663917009888 catalytic residues [active] 663917009889 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 663917009890 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 663917009891 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 663917009892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 663917009893 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 663917009894 Walker A/P-loop; other site 663917009895 ATP binding site [chemical binding]; other site 663917009896 Q-loop/lid; other site 663917009897 ABC transporter signature motif; other site 663917009898 Walker B; other site 663917009899 D-loop; other site 663917009900 H-loop/switch region; other site 663917009901 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 663917009902 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 663917009903 dimer interface [polypeptide binding]; other site 663917009904 conserved gate region; other site 663917009905 putative PBP binding loops; other site 663917009906 ABC-ATPase subunit interface; other site 663917009907 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 663917009908 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 663917009909 molybdenum transport protein ModD; Provisional; Region: PRK06096 663917009910 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 663917009911 dimerization interface [polypeptide binding]; other site 663917009912 active site 663917009913 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 663917009914 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 663917009915 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 663917009916 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 663917009917 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 663917009918 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917009919 diiron binding motif [ion binding]; other site 663917009920 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 663917009921 PAS domain; Region: PAS_9; pfam13426 663917009922 putative active site [active] 663917009923 heme pocket [chemical binding]; other site 663917009924 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917009925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917009926 metal binding site [ion binding]; metal-binding site 663917009927 active site 663917009928 I-site; other site 663917009929 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 663917009930 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 663917009931 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 663917009932 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 663917009933 FAD binding site [chemical binding]; other site 663917009934 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 663917009935 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc2; cd04597 663917009936 DRTGG domain; Region: DRTGG; pfam07085 663917009937 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 663917009938 DHHA2 domain; Region: DHHA2; pfam02833 663917009939 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 663917009940 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 663917009941 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 663917009942 active site 663917009943 intersubunit interactions; other site 663917009944 catalytic residue [active] 663917009945 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 663917009946 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 663917009947 catalytic center binding site [active] 663917009948 ATP binding site [chemical binding]; other site 663917009949 nickel responsive regulator; Provisional; Region: PRK04460 663917009950 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 663917009951 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 663917009952 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 663917009953 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 663917009954 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 663917009955 N-terminal plug; other site 663917009956 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 663917009957 ligand-binding site [chemical binding]; other site 663917009958 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 663917009959 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 663917009960 ABC-ATPase subunit interface; other site 663917009961 dimer interface [polypeptide binding]; other site 663917009962 putative PBP binding regions; other site 663917009963 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 663917009964 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 663917009965 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 663917009966 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 663917009967 intersubunit interface [polypeptide binding]; other site 663917009968 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 663917009969 metal binding site 2 [ion binding]; metal-binding site 663917009970 putative DNA binding helix; other site 663917009971 metal binding site 1 [ion binding]; metal-binding site 663917009972 dimer interface [polypeptide binding]; other site 663917009973 structural Zn2+ binding site [ion binding]; other site 663917009974 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 663917009975 trimer interface [polypeptide binding]; other site 663917009976 putative Zn binding site [ion binding]; other site 663917009977 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 663917009978 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 663917009979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917009980 homodimer interface [polypeptide binding]; other site 663917009981 catalytic residue [active] 663917009982 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 663917009983 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 663917009984 dimerization interface [polypeptide binding]; other site 663917009985 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 663917009986 dimer interface [polypeptide binding]; other site 663917009987 phosphorylation site [posttranslational modification] 663917009988 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 663917009989 ATP binding site [chemical binding]; other site 663917009990 Mg2+ binding site [ion binding]; other site 663917009991 G-X-G motif; other site 663917009992 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 663917009993 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 663917009994 active site 663917009995 SAM binding site [chemical binding]; other site 663917009996 homodimer interface [polypeptide binding]; other site 663917009997 cobyric acid synthase; Provisional; Region: PRK00784 663917009998 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 663917009999 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 663917010000 catalytic triad [active] 663917010001 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 663917010002 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 663917010003 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 663917010004 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 663917010005 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 663917010006 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 663917010007 active site 663917010008 SAM binding site [chemical binding]; other site 663917010009 homodimer interface [polypeptide binding]; other site 663917010010 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 663917010011 active site 663917010012 SAM binding site [chemical binding]; other site 663917010013 homodimer interface [polypeptide binding]; other site 663917010014 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 663917010015 active site 663917010016 putative homodimer interface [polypeptide binding]; other site 663917010017 SAM binding site [chemical binding]; other site 663917010018 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 663917010019 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 663917010020 S-adenosylmethionine binding site [chemical binding]; other site 663917010021 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 663917010022 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 663917010023 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 663917010024 Precorrin-8X methylmutase; Region: CbiC; pfam02570 663917010025 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 663917010026 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 663917010027 putative active site [active] 663917010028 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 663917010029 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 663917010030 Walker A/P-loop; other site 663917010031 ATP binding site [chemical binding]; other site 663917010032 Q-loop/lid; other site 663917010033 ABC transporter signature motif; other site 663917010034 Walker B; other site 663917010035 D-loop; other site 663917010036 H-loop/switch region; other site 663917010037 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 663917010038 cobalt transport protein CbiM; Validated; Region: PRK08319 663917010039 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 663917010040 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 663917010041 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 663917010042 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 663917010043 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 663917010044 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 663917010045 catalytic triad [active] 663917010046 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 663917010047 catalytic core [active] 663917010048 cobalamin synthase; Reviewed; Region: cobS; PRK00235 663917010049 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 663917010050 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 663917010051 putative dimer interface [polypeptide binding]; other site 663917010052 active site pocket [active] 663917010053 putative cataytic base [active] 663917010054 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 663917010055 homotrimer interface [polypeptide binding]; other site 663917010056 Walker A motif; other site 663917010057 GTP binding site [chemical binding]; other site 663917010058 Walker B motif; other site 663917010059 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 663917010060 G1 box; other site 663917010061 GTP/Mg2+ binding site [chemical binding]; other site 663917010062 Switch I region; other site 663917010063 G2 box; other site 663917010064 G3 box; other site 663917010065 Switch II region; other site 663917010066 G4 box; other site 663917010067 G5 box; other site 663917010068 HDOD domain; Region: HDOD; pfam08668 663917010069 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 663917010070 FlaG protein; Region: FlaG; pfam03646 663917010071 M6 family metalloprotease domain; Region: M6dom_TIGR03296 663917010072 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 663917010073 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 663917010074 substrate binding site; other site 663917010075 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 663917010076 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 663917010077 NAD binding site [chemical binding]; other site 663917010078 homotetramer interface [polypeptide binding]; other site 663917010079 homodimer interface [polypeptide binding]; other site 663917010080 substrate binding site [chemical binding]; other site 663917010081 active site 663917010082 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 663917010083 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 663917010084 Methyltransferase domain; Region: Methyltransf_23; pfam13489 663917010085 Methyltransferase domain; Region: Methyltransf_12; pfam08242 663917010086 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 663917010087 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 663917010088 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 663917010089 inhibitor-cofactor binding pocket; inhibition site 663917010090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917010091 catalytic residue [active] 663917010092 WbqC-like protein family; Region: WbqC; pfam08889 663917010093 Methyltransferase domain; Region: Methyltransf_23; pfam13489 663917010094 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 663917010095 S-adenosylmethionine binding site [chemical binding]; other site 663917010096 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 663917010097 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 663917010098 ATP-grasp domain; Region: ATP-grasp_4; cl17255 663917010099 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 663917010100 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 663917010101 active site 663917010102 metal binding site [ion binding]; metal-binding site 663917010103 Cephalosporin hydroxylase; Region: CmcI; pfam04989 663917010104 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917010105 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 663917010106 active site 663917010107 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 663917010108 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 663917010109 active site 663917010110 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 663917010111 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917010112 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917010113 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 663917010114 active site 663917010115 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 663917010116 TPR motif; other site 663917010117 binding surface 663917010118 TPR repeat; Region: TPR_11; pfam13414 663917010119 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 663917010120 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 663917010121 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 663917010122 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 663917010123 Probable Catalytic site; other site 663917010124 metal-binding site 663917010125 Tetratricopeptide repeat; Region: TPR_12; pfam13424 663917010126 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 663917010127 binding surface 663917010128 TPR repeat; Region: TPR_11; pfam13414 663917010129 TPR motif; other site 663917010130 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 663917010131 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 663917010132 binding surface 663917010133 TPR motif; other site 663917010134 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 663917010135 binding surface 663917010136 TPR motif; other site 663917010137 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 663917010138 binding surface 663917010139 TPR motif; other site 663917010140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 663917010141 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 663917010142 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 663917010143 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 663917010144 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 663917010145 putative active site [active] 663917010146 Flagellar protein (FlbD); Region: FlbD; pfam06289 663917010147 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 663917010148 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 663917010149 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 663917010150 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 663917010151 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 663917010152 ligand binding site [chemical binding]; other site 663917010153 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 663917010154 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 663917010155 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 663917010156 putative acyl-acceptor binding pocket; other site 663917010157 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 663917010158 acyl-activating enzyme (AAE) consensus motif; other site 663917010159 putative AMP binding site [chemical binding]; other site 663917010160 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 663917010161 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 663917010162 ATP binding site [chemical binding]; other site 663917010163 Walker A motif; other site 663917010164 Walker B motif; other site 663917010165 arginine finger; other site 663917010166 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 663917010167 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 663917010168 PilZ domain; Region: PilZ; pfam07238 663917010169 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 663917010170 Flagellar protein FliS; Region: FliS; cl00654 663917010171 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 663917010172 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 663917010173 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 663917010174 flagellin; Provisional; Region: PRK12802 663917010175 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 663917010176 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 663917010177 flagellar assembly protein FliW; Provisional; Region: PRK13285 663917010178 Global regulator protein family; Region: CsrA; pfam02599 663917010179 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 663917010180 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 663917010181 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 663917010182 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 663917010183 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 663917010184 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 663917010185 FlgN protein; Region: FlgN; pfam05130 663917010186 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 663917010187 Rod binding protein; Region: Rod-binding; pfam10135 663917010188 palindrome; KN400_R0265 663917010189 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 663917010190 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 663917010191 conserved nucleotide sequence; KN400_R0100 663917010192 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 663917010193 Flagellar L-ring protein; Region: FlgH; pfam02107 663917010194 SAF-like; Region: SAF_2; pfam13144 663917010195 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 663917010196 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 663917010197 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 663917010198 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 663917010199 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 663917010200 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 663917010201 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 663917010202 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 663917010203 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 663917010204 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 663917010205 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 663917010206 DNA binding residues [nucleotide binding] 663917010207 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 663917010208 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 663917010209 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 663917010210 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 663917010211 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 663917010212 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 663917010213 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 663917010214 FHIPEP family; Region: FHIPEP; pfam00771 663917010215 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 663917010216 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 663917010217 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 663917010218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917010219 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 663917010220 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 663917010221 FAD binding pocket [chemical binding]; other site 663917010222 FAD binding motif [chemical binding]; other site 663917010223 phosphate binding motif [ion binding]; other site 663917010224 beta-alpha-beta structure motif; other site 663917010225 NAD binding pocket [chemical binding]; other site 663917010226 Iron coordination center [ion binding]; other site 663917010227 Radical SAM superfamily; Region: Radical_SAM; pfam04055 663917010228 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 663917010229 FeS/SAM binding site; other site 663917010230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 663917010231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 663917010232 WHG domain; Region: WHG; pfam13305 663917010233 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 663917010234 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 663917010235 Active site cavity [active] 663917010236 catalytic acid [active] 663917010237 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 663917010238 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 663917010239 FeS/SAM binding site; other site 663917010240 conserved nucleotide sequence; KN400_R0266 663917010241 cell division protein FtsZ; Validated; Region: PRK09330 663917010242 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 663917010243 nucleotide binding site [chemical binding]; other site 663917010244 SulA interaction site; other site 663917010245 cell division protein FtsA; Region: ftsA; TIGR01174 663917010246 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 663917010247 nucleotide binding site [chemical binding]; other site 663917010248 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 663917010249 Cell division protein FtsA; Region: FtsA; pfam14450 663917010250 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 663917010251 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 663917010252 Cell division protein FtsQ; Region: FtsQ; pfam03799 663917010253 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 663917010254 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 663917010255 ATP-grasp domain; Region: ATP-grasp_4; cl17255 663917010256 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 663917010257 FAD binding domain; Region: FAD_binding_4; pfam01565 663917010258 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 663917010259 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 663917010260 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 663917010261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 663917010262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 663917010263 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 663917010264 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 663917010265 active site 663917010266 homodimer interface [polypeptide binding]; other site 663917010267 cell division protein FtsW; Region: ftsW; TIGR02614 663917010268 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 663917010269 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 663917010270 NAD(P) binding pocket [chemical binding]; other site 663917010271 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 663917010272 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 663917010273 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 663917010274 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 663917010275 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 663917010276 Mg++ binding site [ion binding]; other site 663917010277 putative catalytic motif [active] 663917010278 putative substrate binding site [chemical binding]; other site 663917010279 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 663917010280 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 663917010281 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 663917010282 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 663917010283 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 663917010284 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 663917010285 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 663917010286 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 663917010287 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 663917010288 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 663917010289 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 663917010290 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 663917010291 cell division protein FtsL; Region: ftsL_broad; TIGR02209 663917010292 MraW methylase family; Region: Methyltransf_5; pfam01795 663917010293 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 663917010294 cell division protein MraZ; Reviewed; Region: PRK00326 663917010295 MraZ protein; Region: MraZ; pfam02381 663917010296 MraZ protein; Region: MraZ; pfam02381 663917010297 conserved nucleotide sequence; KN400_R0267 663917010298 putative transposase OrfB; Reviewed; Region: PHA02517 663917010299 HTH-like domain; Region: HTH_21; pfam13276 663917010300 Integrase core domain; Region: rve; pfam00665 663917010301 Integrase core domain; Region: rve_3; cl15866 663917010302 Uncharacterized conserved protein [Function unknown]; Region: COG0327 663917010303 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 663917010304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 663917010305 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 663917010306 Uncharacterized conserved protein [Function unknown]; Region: COG0327 663917010307 conserved nucleotide sequence; KN400_R0268 663917010308 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 663917010309 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 663917010310 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 663917010311 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 663917010312 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 663917010313 putative deacylase active site [active] 663917010314 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 663917010315 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 663917010316 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 663917010317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 663917010318 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 663917010319 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 663917010320 DNA binding residues [nucleotide binding] 663917010321 DNA primase; Validated; Region: dnaG; PRK05667 663917010322 CHC2 zinc finger; Region: zf-CHC2; pfam01807 663917010323 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 663917010324 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 663917010325 active site 663917010326 metal binding site [ion binding]; metal-binding site 663917010327 interdomain interaction site; other site 663917010328 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 663917010329 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 663917010330 Colicin V production protein; Region: Colicin_V; pfam02674 663917010331 Yqey-like protein; Region: YqeY; pfam09424 663917010332 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 663917010333 conserved nucleotide sequence; KN400_R0269 663917010334 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 663917010335 metal binding site [ion binding]; metal-binding site 663917010336 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 663917010337 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 663917010338 substrate binding site [chemical binding]; other site 663917010339 glutamase interaction surface [polypeptide binding]; other site 663917010340 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 663917010341 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 663917010342 catalytic residues [active] 663917010343 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 663917010344 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 663917010345 putative active site [active] 663917010346 oxyanion strand; other site 663917010347 catalytic triad [active] 663917010348 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 663917010349 putative active site pocket [active] 663917010350 4-fold oligomerization interface [polypeptide binding]; other site 663917010351 metal binding residues [ion binding]; metal-binding site 663917010352 3-fold/trimer interface [polypeptide binding]; other site 663917010353 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 663917010354 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 663917010355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917010356 homodimer interface [polypeptide binding]; other site 663917010357 catalytic residue [active] 663917010358 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 663917010359 histidinol dehydrogenase; Region: hisD; TIGR00069 663917010360 NAD binding site [chemical binding]; other site 663917010361 dimerization interface [polypeptide binding]; other site 663917010362 product binding site; other site 663917010363 substrate binding site [chemical binding]; other site 663917010364 zinc binding site [ion binding]; other site 663917010365 catalytic residues [active] 663917010366 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 663917010367 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 663917010368 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 663917010369 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 663917010370 hinge; other site 663917010371 active site 663917010372 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 663917010373 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 663917010374 S-adenosylmethionine binding site [chemical binding]; other site 663917010375 peptide chain release factor 1; Validated; Region: prfA; PRK00591 663917010376 This domain is found in peptide chain release factors; Region: PCRF; smart00937 663917010377 RF-1 domain; Region: RF-1; pfam00472 663917010378 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 663917010379 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 663917010380 conserved nucleotide sequence; KN400_R0293 663917010381 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 663917010382 transcription termination factor Rho; Provisional; Region: rho; PRK09376 663917010383 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 663917010384 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 663917010385 RNA binding site [nucleotide binding]; other site 663917010386 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 663917010387 multimer interface [polypeptide binding]; other site 663917010388 Walker A motif; other site 663917010389 ATP binding site [chemical binding]; other site 663917010390 Walker B motif; other site 663917010391 Transcriptional regulator [Transcription]; Region: IclR; COG1414 663917010392 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 663917010393 Bacterial transcriptional regulator; Region: IclR; pfam01614 663917010394 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 663917010395 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 663917010396 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 663917010397 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 663917010398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 663917010399 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 663917010400 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 663917010401 binding surface 663917010402 TPR motif; other site 663917010403 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 663917010404 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 663917010405 putative acyl-acceptor binding pocket; other site 663917010406 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 663917010407 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 663917010408 dimer interface [polypeptide binding]; other site 663917010409 ssDNA binding site [nucleotide binding]; other site 663917010410 tetramer (dimer of dimers) interface [polypeptide binding]; other site 663917010411 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 663917010412 putative disulfide oxidoreductase; Provisional; Region: PRK04307 663917010413 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 663917010414 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 663917010415 catalytic residues [active] 663917010416 hinge region; other site 663917010417 alpha helical domain; other site 663917010418 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 663917010419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917010420 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 663917010421 dimer interface [polypeptide binding]; other site 663917010422 phosphorylation site [posttranslational modification] 663917010423 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 663917010424 ATP binding site [chemical binding]; other site 663917010425 Mg2+ binding site [ion binding]; other site 663917010426 G-X-G motif; other site 663917010427 Response regulator receiver domain; Region: Response_reg; pfam00072 663917010428 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 663917010429 active site 663917010430 phosphorylation site [posttranslational modification] 663917010431 intermolecular recognition site; other site 663917010432 dimerization interface [polypeptide binding]; other site 663917010433 Firmicute plasmid replication protein (RepL); Region: RepL; pfam05732 663917010434 short chain dehydrogenase; Validated; Region: PRK08264 663917010435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 663917010436 NAD(P) binding site [chemical binding]; other site 663917010437 active site 663917010438 Transcriptional regulators [Transcription]; Region: MarR; COG1846 663917010439 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 663917010440 conserved nucleotide sequence; KN400_R0270 663917010441 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 663917010442 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 663917010443 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 663917010444 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 663917010445 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 663917010446 IHF dimer interface [polypeptide binding]; other site 663917010447 IHF - DNA interface [nucleotide binding]; other site 663917010448 conserved nucleotide sequence; KN400_R0271 663917010449 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 663917010450 Transglycosylase; Region: Transgly; pfam00912 663917010451 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 663917010452 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 663917010453 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 663917010454 lipoprotein signal peptidase; Provisional; Region: PRK14787 663917010455 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 663917010456 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 663917010457 active site 663917010458 HIGH motif; other site 663917010459 nucleotide binding site [chemical binding]; other site 663917010460 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 663917010461 active site 663917010462 KMSKS motif; other site 663917010463 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 663917010464 tRNA binding surface [nucleotide binding]; other site 663917010465 anticodon binding site; other site 663917010466 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 663917010467 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 663917010468 active site 663917010469 phosphorylation site [posttranslational modification] 663917010470 intermolecular recognition site; other site 663917010471 PAS fold; Region: PAS_4; pfam08448 663917010472 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917010473 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 663917010474 dimer interface [polypeptide binding]; other site 663917010475 phosphorylation site [posttranslational modification] 663917010476 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 663917010477 ATP binding site [chemical binding]; other site 663917010478 Mg2+ binding site [ion binding]; other site 663917010479 G-X-G motif; other site 663917010480 Protein of unknown function, DUF399; Region: DUF399; pfam04187 663917010481 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 663917010482 Zn binding site [ion binding]; other site 663917010483 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 663917010484 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 663917010485 conserved nucleotide sequence; KN400_R0102 663917010486 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 663917010487 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 663917010488 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 663917010489 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 663917010490 putative RNA binding site [nucleotide binding]; other site 663917010491 MOSC domain; Region: MOSC; pfam03473 663917010492 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 663917010493 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 663917010494 FeS/SAM binding site; other site 663917010495 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 663917010496 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 663917010497 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 663917010498 GTP binding site; other site 663917010499 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 663917010500 Walker A motif; other site 663917010501 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917010502 GAF domain; Region: GAF; pfam01590 663917010503 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 663917010504 dimer interface [polypeptide binding]; other site 663917010505 phosphorylation site [posttranslational modification] 663917010506 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 663917010507 ATP binding site [chemical binding]; other site 663917010508 Mg2+ binding site [ion binding]; other site 663917010509 G-X-G motif; other site 663917010510 HPP family; Region: HPP; pfam04982 663917010511 PAS domain S-box; Region: sensory_box; TIGR00229 663917010512 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 663917010513 putative active site [active] 663917010514 heme pocket [chemical binding]; other site 663917010515 4Fe-4S binding domain; Region: Fer4_5; pfam12801 663917010516 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 663917010517 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 663917010518 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 663917010519 Cytochrome c552; Region: Cytochrom_C552; pfam02335 663917010520 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 663917010521 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 663917010522 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917010523 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917010524 dimer interface [polypeptide binding]; other site 663917010525 putative CheW interface [polypeptide binding]; other site 663917010526 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 663917010527 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 663917010528 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 663917010529 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 663917010530 dimer interface [polypeptide binding]; other site 663917010531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917010532 catalytic residue [active] 663917010533 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 663917010534 putative active site [active] 663917010535 putative CoA binding site [chemical binding]; other site 663917010536 nudix motif; other site 663917010537 metal binding site [ion binding]; metal-binding site 663917010538 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 663917010539 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 663917010540 probable active site [active] 663917010541 methionine sulfoxide reductase A; Provisional; Region: PRK14054 663917010542 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 663917010543 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 663917010544 tetramer interface [polypeptide binding]; other site 663917010545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917010546 catalytic residue [active] 663917010547 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 663917010548 catalytic residues [active] 663917010549 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 663917010550 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 663917010551 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 663917010552 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 663917010553 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 663917010554 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 663917010555 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 663917010556 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 663917010557 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 663917010558 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 663917010559 PGAP1-like protein; Region: PGAP1; pfam07819 663917010560 Protein of unknown function (DUF770); Region: DUF770; pfam05591 663917010561 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 663917010562 Protein of unknown function (DUF877); Region: DUF877; pfam05943 663917010563 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 663917010564 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 663917010565 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917010566 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 663917010567 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 663917010568 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 663917010569 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 663917010570 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 663917010571 conserved hypothetical protein; Region: TIGR02270 663917010572 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 663917010573 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 663917010574 active site 663917010575 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 663917010576 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 663917010577 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 663917010578 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 663917010579 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 663917010580 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 663917010581 Rubredoxin; Region: Rubredoxin; pfam00301 663917010582 iron binding site [ion binding]; other site 663917010583 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 663917010584 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 663917010585 TPR motif; other site 663917010586 binding surface 663917010587 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 663917010588 binding surface 663917010589 TPR motif; other site 663917010590 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 663917010591 binding surface 663917010592 TPR motif; other site 663917010593 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 663917010594 binding surface 663917010595 TPR motif; other site 663917010596 TPR repeat; Region: TPR_11; pfam13414 663917010597 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 663917010598 binding surface 663917010599 TPR motif; other site 663917010600 TPR repeat; Region: TPR_11; pfam13414 663917010601 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 663917010602 binding surface 663917010603 TPR motif; other site 663917010604 TPR repeat; Region: TPR_11; pfam13414 663917010605 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 663917010606 binding surface 663917010607 TPR motif; other site 663917010608 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 663917010609 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 663917010610 putative dimer interface [polypeptide binding]; other site 663917010611 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 663917010612 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 663917010613 Walker A motif; other site 663917010614 ATP binding site [chemical binding]; other site 663917010615 Walker B motif; other site 663917010616 arginine finger; other site 663917010617 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 663917010618 thiamine monophosphate kinase; Provisional; Region: PRK05731 663917010619 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 663917010620 ATP binding site [chemical binding]; other site 663917010621 dimerization interface [polypeptide binding]; other site 663917010622 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 663917010623 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 663917010624 HAMP domain; Region: HAMP; pfam00672 663917010625 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 663917010626 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 663917010627 dimer interface [polypeptide binding]; other site 663917010628 putative CheW interface [polypeptide binding]; other site 663917010629 CheW-like domain; Region: CheW; pfam01584 663917010630 Response regulator receiver domain; Region: Response_reg; pfam00072 663917010631 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 663917010632 active site 663917010633 phosphorylation site [posttranslational modification] 663917010634 intermolecular recognition site; other site 663917010635 dimerization interface [polypeptide binding]; other site 663917010636 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 663917010637 putative binding surface; other site 663917010638 active site 663917010639 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 663917010640 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 663917010641 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 663917010642 ATP binding site [chemical binding]; other site 663917010643 Mg2+ binding site [ion binding]; other site 663917010644 G-X-G motif; other site 663917010645 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 663917010646 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 663917010647 CheC-like family; Region: CheC; pfam04509 663917010648 CheC-like family; Region: CheC; pfam04509 663917010649 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 663917010650 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 663917010651 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 663917010652 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 663917010653 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 663917010654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 663917010655 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 663917010656 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 663917010657 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 663917010658 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 663917010659 FeS/SAM binding site; other site 663917010660 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 663917010661 phosphoglyceromutase; Provisional; Region: PRK05434 663917010662 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 663917010663 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 663917010664 Oligomerisation domain; Region: Oligomerisation; pfam02410 663917010665 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 663917010666 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 663917010667 active site 663917010668 (T/H)XGH motif; other site 663917010669 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 663917010670 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 663917010671 putative catalytic cysteine [active] 663917010672 conserved nucleotide sequence; KN400_R0272 663917010673 gamma-glutamyl kinase; Provisional; Region: PRK05429 663917010674 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 663917010675 nucleotide binding site [chemical binding]; other site 663917010676 homotetrameric interface [polypeptide binding]; other site 663917010677 putative phosphate binding site [ion binding]; other site 663917010678 putative allosteric binding site; other site 663917010679 PUA domain; Region: PUA; pfam01472 663917010680 GTPase CgtA; Reviewed; Region: obgE; PRK12299 663917010681 GTP1/OBG; Region: GTP1_OBG; pfam01018 663917010682 Obg GTPase; Region: Obg; cd01898 663917010683 G1 box; other site 663917010684 GTP/Mg2+ binding site [chemical binding]; other site 663917010685 Switch I region; other site 663917010686 G2 box; other site 663917010687 G3 box; other site 663917010688 Switch II region; other site 663917010689 G4 box; other site 663917010690 G5 box; other site 663917010691 PilZ domain; Region: PilZ; pfam07238 663917010692 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 663917010693 ATP binding site [chemical binding]; other site 663917010694 G-X-G motif; other site 663917010695 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917010696 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 663917010697 active site 663917010698 phosphorylation site [posttranslational modification] 663917010699 intermolecular recognition site; other site 663917010700 dimerization interface [polypeptide binding]; other site 663917010701 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 663917010702 Walker A motif; other site 663917010703 ATP binding site [chemical binding]; other site 663917010704 Walker B motif; other site 663917010705 arginine finger; other site 663917010706 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917010707 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917010708 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917010709 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 663917010710 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917010711 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 663917010712 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917010713 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 663917010714 active site 663917010715 catalytic triad [active] 663917010716 Uncharacterized conserved protein [Function unknown]; Region: COG1572 663917010717 CARDB; Region: CARDB; pfam07705 663917010718 CARDB; Region: CARDB; pfam07705 663917010719 CARDB; Region: CARDB; pfam07705 663917010720 CARDB; Region: CARDB; pfam07705 663917010721 CARDB; Region: CARDB; pfam07705 663917010722 CARDB; Region: CARDB; pfam07705 663917010723 CARDB; Region: CARDB; pfam07705 663917010724 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917010725 Uncharacterized conserved protein [Function unknown]; Region: COG3391 663917010726 NHL repeat; Region: NHL; pfam01436 663917010727 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917010728 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 663917010729 Uncharacterized conserved protein [Function unknown]; Region: COG3391 663917010730 NHL repeat; Region: NHL; pfam01436 663917010731 NHL repeat; Region: NHL; pfam01436 663917010732 NHL repeat; Region: NHL; pfam01436 663917010733 NHL repeat; Region: NHL; pfam01436 663917010734 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 663917010735 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 663917010736 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 663917010737 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 663917010738 active site 663917010739 phosphorylation site [posttranslational modification] 663917010740 intermolecular recognition site; other site 663917010741 dimerization interface [polypeptide binding]; other site 663917010742 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 663917010743 DNA binding residues [nucleotide binding] 663917010744 dimerization interface [polypeptide binding]; other site 663917010745 PAS domain S-box; Region: sensory_box; TIGR00229 663917010746 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 663917010747 putative active site [active] 663917010748 heme pocket [chemical binding]; other site 663917010749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 663917010750 Histidine kinase; Region: HisKA_3; pfam07730 663917010751 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 663917010752 ATP binding site [chemical binding]; other site 663917010753 Mg2+ binding site [ion binding]; other site 663917010754 G-X-G motif; other site 663917010755 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 663917010756 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 663917010757 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 663917010758 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 663917010759 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 663917010760 iron-sulfur cluster [ion binding]; other site 663917010761 [2Fe-2S] cluster binding site [ion binding]; other site 663917010762 ribonuclease G; Provisional; Region: PRK11712 663917010763 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 663917010764 homodimer interface [polypeptide binding]; other site 663917010765 oligonucleotide binding site [chemical binding]; other site 663917010766 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 663917010767 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 663917010768 B12 binding site [chemical binding]; other site 663917010769 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 663917010770 FeS/SAM binding site; other site 663917010771 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 663917010772 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 663917010773 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 663917010774 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 663917010775 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like2_exo; cd05785 663917010776 DNA polymerase type-B family; Region: POLBc; smart00486 663917010777 active site 663917010778 catalytic site [active] 663917010779 substrate binding site [chemical binding]; other site 663917010780 DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II_B; cd05538 663917010781 active site 663917010782 metal-binding site 663917010783 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 663917010784 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 663917010785 dimer interface [polypeptide binding]; other site 663917010786 decamer (pentamer of dimers) interface [polypeptide binding]; other site 663917010787 catalytic triad [active] 663917010788 peroxidatic and resolving cysteines [active] 663917010789 4Fe-4S binding domain; Region: Fer4_6; pfam12837 663917010790 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917010791 hypothetical protein; Provisional; Region: PRK10410 663917010792 poly(A) polymerase; Region: pcnB; TIGR01942 663917010793 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 663917010794 active site 663917010795 NTP binding site [chemical binding]; other site 663917010796 metal binding triad [ion binding]; metal-binding site 663917010797 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 663917010798 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 663917010799 conserved nucleotide sequence; KN400_R0103 663917010800 Protein of unknown function (DUF523); Region: DUF523; pfam04463 663917010801 Uncharacterized conserved protein [Function unknown]; Region: COG3272 663917010802 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 663917010803 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 663917010804 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917010805 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 663917010806 dimer interface [polypeptide binding]; other site 663917010807 phosphorylation site [posttranslational modification] 663917010808 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 663917010809 ATP binding site [chemical binding]; other site 663917010810 Mg2+ binding site [ion binding]; other site 663917010811 G-X-G motif; other site 663917010812 Response regulator receiver domain; Region: Response_reg; pfam00072 663917010813 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 663917010814 active site 663917010815 phosphorylation site [posttranslational modification] 663917010816 intermolecular recognition site; other site 663917010817 dimerization interface [polypeptide binding]; other site 663917010818 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 663917010819 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 663917010820 active site 663917010821 Substrate binding site; other site 663917010822 Mg++ binding site; other site 663917010823 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 663917010824 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 663917010825 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 663917010826 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 663917010827 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 663917010828 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 663917010829 putative active site [active] 663917010830 catalytic site [active] 663917010831 ADP-glucose phosphorylase; Region: PLN02643 663917010832 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 663917010833 dimer interface [polypeptide binding]; other site 663917010834 active site 663917010835 glycogen synthase; Provisional; Region: glgA; PRK00654 663917010836 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 663917010837 ADP-binding pocket [chemical binding]; other site 663917010838 homodimer interface [polypeptide binding]; other site 663917010839 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 663917010840 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 663917010841 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 663917010842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917010843 catalytic residue [active] 663917010844 Response regulator receiver domain; Region: Response_reg; pfam00072 663917010845 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 663917010846 active site 663917010847 phosphorylation site [posttranslational modification] 663917010848 intermolecular recognition site; other site 663917010849 dimerization interface [polypeptide binding]; other site 663917010850 excinuclease ABC subunit B; Provisional; Region: PRK05298 663917010851 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 663917010852 ATP binding site [chemical binding]; other site 663917010853 putative Mg++ binding site [ion binding]; other site 663917010854 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 663917010855 nucleotide binding region [chemical binding]; other site 663917010856 ATP-binding site [chemical binding]; other site 663917010857 Ultra-violet resistance protein B; Region: UvrB; pfam12344 663917010858 UvrB/uvrC motif; Region: UVR; pfam02151 663917010859 Response regulator receiver domain; Region: Response_reg; pfam00072 663917010860 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 663917010861 active site 663917010862 phosphorylation site [posttranslational modification] 663917010863 intermolecular recognition site; other site 663917010864 dimerization interface [polypeptide binding]; other site 663917010865 PilZ domain; Region: PilZ; pfam07238 663917010866 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 663917010867 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 663917010868 putative substrate translocation pore; other site 663917010869 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 663917010870 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 663917010871 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 663917010872 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 663917010873 Soluble P-type ATPase [General function prediction only]; Region: COG4087 663917010874 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 663917010875 metal-binding site [ion binding] 663917010876 Hemin uptake protein hemP; Region: hemP; pfam10636 663917010877 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 663917010878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 663917010879 Zn2+ binding site [ion binding]; other site 663917010880 Mg2+ binding site [ion binding]; other site 663917010881 FeoA domain; Region: FeoA; pfam04023 663917010882 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917010883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917010884 metal binding site [ion binding]; metal-binding site 663917010885 active site 663917010886 I-site; other site 663917010887 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 663917010888 GTP/Mg2+ binding site [chemical binding]; other site 663917010889 G5 box; other site 663917010890 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 663917010891 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 663917010892 G1 box; other site 663917010893 G1 box; other site 663917010894 GTP/Mg2+ binding site [chemical binding]; other site 663917010895 Switch I region; other site 663917010896 Switch I region; other site 663917010897 G2 box; other site 663917010898 G2 box; other site 663917010899 G3 box; other site 663917010900 Switch II region; other site 663917010901 G4 box; other site 663917010902 G5 box; other site 663917010903 Nucleoside recognition; Region: Gate; pfam07670 663917010904 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 663917010905 Nucleoside recognition; Region: Gate; pfam07670 663917010906 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 663917010907 FeoA domain; Region: FeoA; pfam04023 663917010908 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 663917010909 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 663917010910 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 663917010911 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 663917010912 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917010913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 663917010914 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 663917010915 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 663917010916 conserved nucleotide sequence; KN400_R0273 663917010917 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 663917010918 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 663917010919 GIY-YIG motif/motif A; other site 663917010920 active site 663917010921 catalytic site [active] 663917010922 putative DNA binding site [nucleotide binding]; other site 663917010923 metal binding site [ion binding]; metal-binding site 663917010924 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 663917010925 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 663917010926 DNA binding site [nucleotide binding] 663917010927 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 663917010928 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 663917010929 catalytic residues [active] 663917010930 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 663917010931 catalytic residues [active] 663917010932 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 663917010933 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 663917010934 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 663917010935 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 663917010936 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 663917010937 tRNA; other site 663917010938 putative tRNA binding site [nucleotide binding]; other site 663917010939 putative NADP binding site [chemical binding]; other site 663917010940 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 663917010941 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 663917010942 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 663917010943 domain interfaces; other site 663917010944 active site 663917010945 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 663917010946 active site 663917010947 SAM binding site [chemical binding]; other site 663917010948 homodimer interface [polypeptide binding]; other site 663917010949 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 663917010950 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 663917010951 active site 663917010952 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 663917010953 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 663917010954 active site 663917010955 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 663917010956 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 663917010957 putative ATP binding site [chemical binding]; other site 663917010958 putative substrate interface [chemical binding]; other site 663917010959 Uncharacterized conserved protein [Function unknown]; Region: COG1633 663917010960 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917010961 diiron binding motif [ion binding]; other site 663917010962 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 663917010963 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 663917010964 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 663917010965 conserved nucleotide sequence; KN400_R0274 663917010966 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 663917010967 metal binding site 2 [ion binding]; metal-binding site 663917010968 putative DNA binding helix; other site 663917010969 metal binding site 1 [ion binding]; metal-binding site 663917010970 dimer interface [polypeptide binding]; other site 663917010971 structural Zn2+ binding site [ion binding]; other site 663917010972 Rubredoxin [Energy production and conversion]; Region: COG1773 663917010973 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 663917010974 iron binding site [ion binding]; other site 663917010975 Uncharacterized conserved protein [Function unknown]; Region: COG1633 663917010976 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 663917010977 diiron binding motif [ion binding]; other site 663917010978 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 663917010979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 663917010980 Flavodoxin; Region: Flavodoxin_1; pfam00258 663917010981 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 663917010982 FAD binding domain; Region: FAD_binding_4; pfam01565 663917010983 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 663917010984 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 663917010985 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 663917010986 Cysteine-rich domain; Region: CCG; pfam02754 663917010987 Cysteine-rich domain; Region: CCG; pfam02754 663917010988 conserved nucleotide sequence; KN400_R0275 663917010989 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 663917010990 sequence-specific DNA binding site [nucleotide binding]; other site 663917010991 salt bridge; other site 663917010992 Cupin domain; Region: Cupin_2; pfam07883 663917010993 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 663917010994 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 663917010995 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 663917010996 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 663917010997 ATP-grasp domain; Region: ATP-grasp_4; cl17255 663917010998 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 663917010999 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 663917011000 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 663917011001 carboxyltransferase (CT) interaction site; other site 663917011002 biotinylation site [posttranslational modification]; other site 663917011003 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 663917011004 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 663917011005 TMP-binding site; other site 663917011006 ATP-binding site [chemical binding]; other site 663917011007 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 663917011008 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 663917011009 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 663917011010 dimer interface [polypeptide binding]; other site 663917011011 substrate binding site [chemical binding]; other site 663917011012 metal binding site [ion binding]; metal-binding site 663917011013 conserved nucleotide sequence; KN400_R0276 663917011014 conserved nucleotide sequence; KN400_R0277 663917011015 conserved nucleotide sequence; KN400_R0278 663917011016 Family description; Region: VCBS; pfam13517 663917011017 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 663917011018 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 663917011019 dimer interface [polypeptide binding]; other site 663917011020 motif 1; other site 663917011021 active site 663917011022 motif 2; other site 663917011023 motif 3; other site 663917011024 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 663917011025 anticodon binding site; other site 663917011026 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 663917011027 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 663917011028 GDP-binding site [chemical binding]; other site 663917011029 ACT binding site; other site 663917011030 IMP binding site; other site 663917011031 trRNA_5; KN400_R0279 663917011032 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 663917011033 Walker A motif; other site 663917011034 ATP binding site [chemical binding]; other site 663917011035 Walker B motif; other site 663917011036 arginine finger; other site 663917011037 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 663917011038 heme-binding site [chemical binding]; other site 663917011039 Ferrochelatase; Region: Ferrochelatase; pfam00762 663917011040 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 663917011041 C-terminal domain interface [polypeptide binding]; other site 663917011042 active site 663917011043 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 663917011044 active site 663917011045 N-terminal domain interface [polypeptide binding]; other site 663917011046 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 663917011047 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 663917011048 active site 663917011049 palindrome; KN400_R0280 663917011050 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 663917011051 putative substrate translocation pore; other site 663917011052 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 663917011053 ResB-like family; Region: ResB; pfam05140 663917011054 Uncharacterized conserved protein [Function unknown]; Region: COG5316 663917011055 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 663917011056 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 663917011057 substrate binding site [chemical binding]; other site 663917011058 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 663917011059 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 663917011060 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 663917011061 S-adenosylmethionine binding site [chemical binding]; other site 663917011062 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 663917011063 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 663917011064 active site 663917011065 substrate binding site [chemical binding]; other site 663917011066 metal binding site [ion binding]; metal-binding site 663917011067 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 663917011068 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 663917011069 Cl binding site [ion binding]; other site 663917011070 oligomer interface [polypeptide binding]; other site 663917011071 polyphosphate kinase; Provisional; Region: PRK05443 663917011072 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 663917011073 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 663917011074 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 663917011075 putative domain interface [polypeptide binding]; other site 663917011076 putative active site [active] 663917011077 catalytic site [active] 663917011078 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 663917011079 putative domain interface [polypeptide binding]; other site 663917011080 putative active site [active] 663917011081 catalytic site [active] 663917011082 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 663917011083 non-specific DNA binding site [nucleotide binding]; other site 663917011084 Predicted transcriptional regulator [Transcription]; Region: COG2932 663917011085 salt bridge; other site 663917011086 sequence-specific DNA binding site [nucleotide binding]; other site 663917011087 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 663917011088 Catalytic site [active] 663917011089 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 663917011090 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 663917011091 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 663917011092 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 663917011093 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 663917011094 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 663917011095 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 663917011096 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 663917011097 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 663917011098 FeS/SAM binding site; other site 663917011099 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 663917011100 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_family; cd02803 663917011101 active site 663917011102 FMN binding site [chemical binding]; other site 663917011103 substrate binding site [chemical binding]; other site 663917011104 putative catalytic residue [active] 663917011105 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 663917011106 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 663917011107 domain interfaces; other site 663917011108 active site 663917011109 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 663917011110 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 663917011111 Cytochrome c; Region: Cytochrom_C; pfam00034 663917011112 Protein of unknown function (DUF507); Region: DUF507; cl01112 663917011113 Protein of unknown function (DUF507); Region: DUF507; cl01112 663917011114 conserved nucleotide sequence; KN400_R0281 663917011115 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 663917011116 oligomerisation interface [polypeptide binding]; other site 663917011117 mobile loop; other site 663917011118 roof hairpin; other site 663917011119 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 663917011120 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 663917011121 ring oligomerisation interface [polypeptide binding]; other site 663917011122 ATP/Mg binding site [chemical binding]; other site 663917011123 stacking interactions; other site 663917011124 hinge regions; other site 663917011125 PrkA AAA domain; Region: AAA_PrkA; smart00763 663917011126 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 663917011127 hypothetical protein; Provisional; Region: PRK05325 663917011128 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 663917011129 SpoVR like protein; Region: SpoVR; pfam04293 663917011130 PrkA AAA domain; Region: AAA_PrkA; smart00763 663917011131 K+ potassium transporter; Region: K_trans; pfam02705 663917011132 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 663917011133 Peptidase family U32; Region: Peptidase_U32; pfam01136 663917011134 Collagenase; Region: DUF3656; pfam12392 663917011135 conserved nucleotide sequence; KN400_R0282 663917011136 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 663917011137 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 663917011138 dimerization interface [polypeptide binding]; other site 663917011139 domain crossover interface; other site 663917011140 redox-dependent activation switch; other site 663917011141 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 663917011142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917011143 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 663917011144 dimer interface [polypeptide binding]; other site 663917011145 phosphorylation site [posttranslational modification] 663917011146 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 663917011147 ATP binding site [chemical binding]; other site 663917011148 Mg2+ binding site [ion binding]; other site 663917011149 G-X-G motif; other site 663917011150 Response regulator receiver domain; Region: Response_reg; pfam00072 663917011151 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 663917011152 active site 663917011153 phosphorylation site [posttranslational modification] 663917011154 intermolecular recognition site; other site 663917011155 dimerization interface [polypeptide binding]; other site 663917011156 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917011157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917011158 metal binding site [ion binding]; metal-binding site 663917011159 active site 663917011160 I-site; other site 663917011161 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 663917011162 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 663917011163 RNA binding surface [nucleotide binding]; other site 663917011164 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 663917011165 active site 663917011166 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 663917011167 dimer interface [polypeptide binding]; other site 663917011168 ADP-ribose binding site [chemical binding]; other site 663917011169 active site 663917011170 nudix motif; other site 663917011171 metal binding site [ion binding]; metal-binding site 663917011172 HAMP domain; Region: HAMP; pfam00672 663917011173 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917011174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917011175 metal binding site [ion binding]; metal-binding site 663917011176 active site 663917011177 I-site; other site 663917011178 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 663917011179 PAS domain S-box; Region: sensory_box; TIGR00229 663917011180 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 663917011181 putative active site [active] 663917011182 heme pocket [chemical binding]; other site 663917011183 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 663917011184 dimer interface [polypeptide binding]; other site 663917011185 phosphorylation site [posttranslational modification] 663917011186 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 663917011187 ATP binding site [chemical binding]; other site 663917011188 Mg2+ binding site [ion binding]; other site 663917011189 G-X-G motif; other site 663917011190 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 663917011191 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 663917011192 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 663917011193 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 663917011194 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 663917011195 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 663917011196 conserved nucleotide sequence; KN400_R0283 663917011197 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 663917011198 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 663917011199 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 663917011200 Putative Fe-S cluster; Region: FeS; cl17515 663917011201 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 663917011202 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 663917011203 Walker A motif; other site 663917011204 ATP binding site [chemical binding]; other site 663917011205 Walker B motif; other site 663917011206 arginine finger; other site 663917011207 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917011208 conserved nucleotide sequence; KN400_R0284 663917011209 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 663917011210 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 663917011211 active site 663917011212 HIGH motif; other site 663917011213 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 663917011214 KMSKS motif; other site 663917011215 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 663917011216 tRNA binding surface [nucleotide binding]; other site 663917011217 anticodon binding site; other site 663917011218 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 663917011219 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 663917011220 active site 663917011221 HIGH motif; other site 663917011222 nucleotide binding site [chemical binding]; other site 663917011223 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 663917011224 KMSKS motif; other site 663917011225 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 663917011226 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 663917011227 homotrimer interaction site [polypeptide binding]; other site 663917011228 zinc binding site [ion binding]; other site 663917011229 CDP-binding sites; other site 663917011230 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 663917011231 substrate binding site; other site 663917011232 dimer interface; other site 663917011233 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 663917011234 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 663917011235 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 663917011236 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 663917011237 catalytic residue [active] 663917011238 Transcriptional regulators [Transcription]; Region: GntR; COG1802 663917011239 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 663917011240 DNA-binding site [nucleotide binding]; DNA binding site 663917011241 FCD domain; Region: FCD; pfam07729 663917011242 conserved nucleotide sequence; KN400_R0285 663917011243 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 663917011244 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 663917011245 Metal-binding active site; metal-binding site 663917011246 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 663917011247 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 663917011248 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 663917011249 putative active site [active] 663917011250 catalytic site [active] 663917011251 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 663917011252 putative active site [active] 663917011253 catalytic site [active] 663917011254 16S rRNA methyltransferase B; Provisional; Region: PRK14902 663917011255 NusB family; Region: NusB; pfam01029 663917011256 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 663917011257 S-adenosylmethionine binding site [chemical binding]; other site 663917011258 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 663917011259 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 663917011260 substrate binding site [chemical binding]; other site 663917011261 hexamer interface [polypeptide binding]; other site 663917011262 metal binding site [ion binding]; metal-binding site 663917011263 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 663917011264 putative active site [active] 663917011265 putative CoA binding site [chemical binding]; other site 663917011266 nudix motif; other site 663917011267 metal binding site [ion binding]; metal-binding site 663917011268 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 663917011269 Response regulator receiver domain; Region: Response_reg; pfam00072 663917011270 active site 663917011271 phosphorylation site [posttranslational modification] 663917011272 intermolecular recognition site; other site 663917011273 dimerization interface [polypeptide binding]; other site 663917011274 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 663917011275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 663917011276 metal binding site [ion binding]; metal-binding site 663917011277 active site 663917011278 I-site; other site 663917011279 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 663917011280 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 663917011281 minor groove reading motif; other site 663917011282 helix-hairpin-helix signature motif; other site 663917011283 substrate binding pocket [chemical binding]; other site 663917011284 active site 663917011285 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 663917011286 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 663917011287 metal binding triad; other site 663917011288 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 663917011289 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 663917011290 metal binding triad; other site 663917011291 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 663917011292 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 663917011293 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 663917011294 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 663917011295 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 663917011296 GatB domain; Region: GatB_Yqey; smart00845 663917011297 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 663917011298 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 663917011299 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 663917011300 conserved nucleotide sequence; KN400_R0286 663917011301 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 663917011302 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 663917011303 putative active site [active] 663917011304 catalytic site [active] 663917011305 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 663917011306 putative active site [active] 663917011307 catalytic site [active] 663917011308 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 663917011309 active site 663917011310 substrate-binding site [chemical binding]; other site 663917011311 metal-binding site [ion binding] 663917011312 GTP binding site [chemical binding]; other site 663917011313 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 663917011314 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 663917011315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 663917011316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 663917011317 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 663917011318 EamA-like transporter family; Region: EamA; pfam00892 663917011319 EamA-like transporter family; Region: EamA; pfam00892 663917011320 FecR protein; Region: FecR; pfam04773 663917011321 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 663917011322 EamA-like transporter family; Region: EamA; pfam00892 663917011323 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 663917011324 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 663917011325 Walker A/P-loop; other site 663917011326 ATP binding site [chemical binding]; other site 663917011327 Q-loop/lid; other site 663917011328 ABC transporter signature motif; other site 663917011329 Walker B; other site 663917011330 D-loop; other site 663917011331 H-loop/switch region; other site 663917011332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 663917011333 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 663917011334 Walker A/P-loop; other site 663917011335 ATP binding site [chemical binding]; other site 663917011336 Q-loop/lid; other site 663917011337 ABC transporter signature motif; other site 663917011338 Walker B; other site 663917011339 D-loop; other site 663917011340 H-loop/switch region; other site 663917011341 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 663917011342 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 663917011343 TM-ABC transporter signature motif; other site 663917011344 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 663917011345 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 663917011346 TM-ABC transporter signature motif; other site 663917011347 Proline dehydrogenase; Region: Pro_dh; cl03282 663917011348 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 663917011349 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 663917011350 Glutamate binding site [chemical binding]; other site 663917011351 homodimer interface [polypeptide binding]; other site 663917011352 NAD binding site [chemical binding]; other site 663917011353 catalytic residues [active] 663917011354 conserved nucleotide sequence; KN400_R0287 663917011355 Transcriptional regulators [Transcription]; Region: FadR; COG2186 663917011356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 663917011357 DNA-binding site [nucleotide binding]; DNA binding site 663917011358 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 663917011359 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 663917011360 YtkA-like; Region: YtkA; pfam13115 663917011361 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 663917011362 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 663917011363 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 663917011364 palindrome; KN400_R0288 663917011365 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 663917011366 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_12; cd06347 663917011367 putative ligand binding site [chemical binding]; other site 663917011368 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 663917011369 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 663917011370 Walker A/P-loop; other site 663917011371 ATP binding site [chemical binding]; other site 663917011372 Q-loop/lid; other site 663917011373 ABC transporter signature motif; other site 663917011374 Walker B; other site 663917011375 D-loop; other site 663917011376 H-loop/switch region; other site 663917011377 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 663917011378 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 663917011379 dimer interface [polypeptide binding]; other site 663917011380 conserved gate region; other site 663917011381 putative PBP binding loops; other site 663917011382 ABC-ATPase subunit interface; other site 663917011383 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 663917011384 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 663917011385 substrate binding pocket [chemical binding]; other site 663917011386 membrane-bound complex binding site; other site 663917011387 hinge residues; other site 663917011388 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 663917011389 EamA-like transporter family; Region: EamA; pfam00892 663917011390 EamA-like transporter family; Region: EamA; pfam00892 663917011391 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 663917011392 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 663917011393 tetramer interface [polypeptide binding]; other site 663917011394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 663917011395 catalytic residue [active] 663917011396 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 663917011397 Part of AAA domain; Region: AAA_19; pfam13245 663917011398 Family description; Region: UvrD_C_2; pfam13538 663917011399 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 663917011400 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 663917011401 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 663917011402 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 663917011403 FeS/SAM binding site; other site 663917011404 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 663917011405 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 663917011406 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 663917011407 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 663917011408 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 663917011409 active site 663917011410 phosphorylation site [posttranslational modification] 663917011411 intermolecular recognition site; other site 663917011412 dimerization interface [polypeptide binding]; other site 663917011413 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 663917011414 Walker A motif; other site 663917011415 ATP binding site [chemical binding]; other site 663917011416 Walker B motif; other site 663917011417 arginine finger; other site 663917011418 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 663917011419 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 663917011420 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 663917011421 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 663917011422 dimer interface [polypeptide binding]; other site 663917011423 phosphorylation site [posttranslational modification] 663917011424 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 663917011425 ATP binding site [chemical binding]; other site 663917011426 Mg2+ binding site [ion binding]; other site 663917011427 G-X-G motif; other site 663917011428 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 663917011429 putative acyl-acceptor binding pocket; other site 663917011430 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 663917011431 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 663917011432 ligand binding site [chemical binding]; other site 663917011433 flexible hinge region; other site 663917011434 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 663917011435 putative switch regulator; other site 663917011436 non-specific DNA interactions [nucleotide binding]; other site 663917011437 DNA binding site [nucleotide binding] 663917011438 sequence specific DNA binding site [nucleotide binding]; other site 663917011439 putative cAMP binding site [chemical binding]; other site 663917011440 DTW domain; Region: DTW; cl01221 663917011441 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 663917011442 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 663917011443 TPP-binding site [chemical binding]; other site 663917011444 dimer interface [polypeptide binding]; other site 663917011445 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 663917011446 PYR/PP interface [polypeptide binding]; other site 663917011447 dimer interface [polypeptide binding]; other site 663917011448 TPP binding site [chemical binding]; other site 663917011449 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 663917011450 mercuric reductase; Region: MerA; TIGR02053 663917011451 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 663917011452 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 663917011453 conserved nucleotide sequence; KN400_R0104 663917011454 hypothetical protein; Provisional; Region: PRK09272 663917011455 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 663917011456 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 663917011457 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917011458 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 663917011459 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917011460 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 663917011461 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 663917011462 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 663917011463 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 663917011464 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 663917011465 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 663917011466 4Fe-4S binding domain; Region: Fer4; pfam00037 663917011467 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 663917011468 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 663917011469 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 663917011470 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 663917011471 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 663917011472 PAS domain S-box; Region: sensory_box; TIGR00229 663917011473 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 663917011474 putative active site [active] 663917011475 heme pocket [chemical binding]; other site 663917011476 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 663917011477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 663917011478 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 663917011479 dimer interface [polypeptide binding]; other site 663917011480 phosphorylation site [posttranslational modification] 663917011481 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 663917011482 ATP binding site [chemical binding]; other site 663917011483 Mg2+ binding site [ion binding]; other site 663917011484 G-X-G motif; other site 663917011485 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 663917011486 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 663917011487 PhnA protein; Region: PhnA; pfam03831 663917011488 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 663917011489 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 663917011490 catalytic loop [active] 663917011491 iron binding site [ion binding]; other site 663917011492 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 663917011493 MopB_NADH-Q-OR-NuoG2: The NuoG/Nad11/75-kDa subunit (second domain) of the NADH-quinone oxidoreductase (NADH-Q-OR)/respiratory complex I/NADH dehydrogenase-1 (NDH-1). The NADH-Q-OR is the first energy-transducting complex in the respiratory chains of...; Region: MopB_NADH-Q-OR-NuoG2; cd02768 663917011494 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 663917011495 SLBB domain; Region: SLBB; pfam10531 663917011496 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 663917011497 Uncharacterized conserved protein [Function unknown]; Region: COG3189 663917011498 NADH dehydrogenase subunit E; Validated; Region: PRK07539 663917011499 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 663917011500 putative dimer interface [polypeptide binding]; other site 663917011501 [2Fe-2S] cluster binding site [ion binding]; other site 663917011502 NADH dehydrogenase subunit B; Validated; Region: PRK06411 663917011503 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional; Region: PRK13292 663917011504 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 663917011505 NADH dehydrogenase subunit D; Validated; Region: PRK06075 663917011506 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 663917011507 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 663917011508 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 663917011509 catalytic residues [active] 663917011510 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 663917011511 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 663917011512 catalytic triad [active] 663917011513 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 663917011514 propionate/acetate kinase; Provisional; Region: PRK12379 663917011515 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 663917011516 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 663917011517 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 663917011518 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 663917011519 active site 663917011520 dimer interface [polypeptide binding]; other site 663917011521 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 663917011522 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 663917011523 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 663917011524 active site 663917011525 FMN binding site [chemical binding]; other site 663917011526 substrate binding site [chemical binding]; other site 663917011527 3Fe-4S cluster binding site [ion binding]; other site 663917011528 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 663917011529 domain_subunit interface; other site 663917011530 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 663917011531 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 663917011532 SlyX; Region: SlyX; pfam04102 663917011533 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 663917011534 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 663917011535 substrate binding site [chemical binding]; other site 663917011536 active site 663917011537 conserved nucleotide sequence; KN400_R0105 663917011538 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 663917011539 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 663917011540 FeS/SAM binding site; other site 663917011541 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 663917011542 ABC-2 type transporter; Region: ABC2_membrane; cl17235 663917011543 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 663917011544 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 663917011545 active site 663917011546 catalytic residues [active] 663917011547 metal binding site [ion binding]; metal-binding site 663917011548 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 663917011549 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 663917011550 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 663917011551 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 663917011552 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 663917011553 active site 663917011554 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 663917011555 active site 663917011556 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 663917011557 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 663917011558 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 663917011559 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 663917011560 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 663917011561 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 663917011562 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 663917011563 trmE is a tRNA modification GTPase; Region: trmE; cd04164 663917011564 G1 box; other site 663917011565 GTP/Mg2+ binding site [chemical binding]; other site 663917011566 Switch I region; other site 663917011567 G2 box; other site 663917011568 Switch II region; other site 663917011569 G3 box; other site 663917011570 G4 box; other site 663917011571 G5 box; other site 663917011572 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 663917011573 membrane protein insertase; Provisional; Region: PRK01318 663917011574 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 663917011575 Haemolytic domain; Region: Haemolytic; pfam01809 663917011576 Ribonuclease P; Region: Ribonuclease_P; cl00457 663917011577 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399