-- dump date 20140619_064710 -- class Genbank::misc_feature -- table misc_feature_note -- id note 883000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 883000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 883000003 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 883000004 Walker A motif; other site 883000005 ATP binding site [chemical binding]; other site 883000006 Walker B motif; other site 883000007 arginine finger; other site 883000008 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 883000009 DnaA box-binding interface [nucleotide binding]; other site 883000010 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 883000011 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 883000012 non-specific DNA binding site [nucleotide binding]; other site 883000013 salt bridge; other site 883000014 sequence-specific DNA binding site [nucleotide binding]; other site 883000015 Cupin domain; Region: Cupin_2; pfam07883 883000016 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883000017 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 883000018 acyl-activating enzyme (AAE) consensus motif; other site 883000019 AMP binding site [chemical binding]; other site 883000020 active site 883000021 CoA binding site [chemical binding]; other site 883000022 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 883000023 YcaO-like family; Region: YcaO; pfam02624 883000024 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 883000025 binding surface 883000026 TPR motif; other site 883000027 TPR repeat; Region: TPR_11; pfam13414 883000028 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 883000029 S-adenosylmethionine binding site [chemical binding]; other site 883000030 Domain of unknown function DUF302; Region: DUF302; pfam03625 883000031 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 883000032 Domain of unknown function (DUF814); Region: DUF814; pfam05670 883000033 EAL domain; Region: EAL; pfam00563 883000034 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 883000035 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 883000036 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 883000037 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 883000038 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 883000039 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 883000040 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 883000041 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 883000042 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 883000043 intersubunit interface [polypeptide binding]; other site 883000044 active site 883000045 zinc binding site [ion binding]; other site 883000046 Na+ binding site [ion binding]; other site 883000047 hypothetical protein; Provisional; Region: PRK05849 883000048 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883000049 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883000050 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883000051 conserved cys residue [active] 883000052 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 883000053 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 883000054 active site 883000055 metal-binding site 883000056 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 883000057 S-adenosylmethionine binding site [chemical binding]; other site 883000058 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 883000059 active site 883000060 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 883000061 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 883000062 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 883000063 generic binding surface I; other site 883000064 generic binding surface II; other site 883000065 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 883000066 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883000067 Zn2+ binding site [ion binding]; other site 883000068 Mg2+ binding site [ion binding]; other site 883000069 thymidylate kinase; Validated; Region: tmk; PRK00698 883000070 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 883000071 TMP-binding site; other site 883000072 ATP-binding site [chemical binding]; other site 883000073 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 883000074 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 883000075 active site 883000076 Zn binding site [ion binding]; other site 883000077 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 883000078 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 883000079 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 883000080 CoA-ligase; Region: Ligase_CoA; pfam00549 883000081 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 883000082 CoA binding domain; Region: CoA_binding; smart00881 883000083 CoA-ligase; Region: Ligase_CoA; pfam00549 883000084 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 883000085 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 883000086 dimer interface [polypeptide binding]; other site 883000087 PYR/PP interface [polypeptide binding]; other site 883000088 TPP binding site [chemical binding]; other site 883000089 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 883000090 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 883000091 TPP-binding site [chemical binding]; other site 883000092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883000093 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883000094 metal binding site [ion binding]; metal-binding site 883000095 active site 883000096 I-site; other site 883000097 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883000098 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883000099 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883000100 HlyD family secretion protein; Region: HlyD_3; pfam13437 883000101 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 883000102 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 883000103 Permease; Region: Permease; pfam02405 883000104 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883000105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883000106 Walker A/P-loop; other site 883000107 ATP binding site [chemical binding]; other site 883000108 Q-loop/lid; other site 883000109 ABC transporter signature motif; other site 883000110 Walker B; other site 883000111 D-loop; other site 883000112 H-loop/switch region; other site 883000113 mce related protein; Region: MCE; pfam02470 883000114 Proteins of 100 residues with WXG; Region: WXG100; cl02005 883000115 Protein of unknown function (DUF330); Region: DUF330; pfam03886 883000116 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883000117 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883000118 metal binding site [ion binding]; metal-binding site 883000119 active site 883000120 I-site; other site 883000121 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 883000122 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883000123 DNA binding residues [nucleotide binding] 883000124 hypothetical protein; Provisional; Region: PRK04334 883000125 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 883000126 putative catalytic site [active] 883000127 putative metal binding site [ion binding]; other site 883000128 putative phosphate binding site [ion binding]; other site 883000129 ornithine carbamoyltransferase; Provisional; Region: PRK00779 883000130 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 883000131 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 883000132 argininosuccinate synthase; Provisional; Region: PRK13820 883000133 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 883000134 ANP binding site [chemical binding]; other site 883000135 Substrate Binding Site II [chemical binding]; other site 883000136 Substrate Binding Site I [chemical binding]; other site 883000137 argininosuccinate lyase; Provisional; Region: PRK00855 883000138 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 883000139 active sites [active] 883000140 tetramer interface [polypeptide binding]; other site 883000141 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 883000142 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 883000143 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 883000144 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883000145 substrate binding pocket [chemical binding]; other site 883000146 membrane-bound complex binding site; other site 883000147 hinge residues; other site 883000148 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 883000149 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883000150 FtsH Extracellular; Region: FtsH_ext; pfam06480 883000151 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 883000152 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 883000153 Walker A motif; other site 883000154 ATP binding site [chemical binding]; other site 883000155 Walker B motif; other site 883000156 arginine finger; other site 883000157 Peptidase family M41; Region: Peptidase_M41; pfam01434 883000158 dihydropteroate synthase; Region: DHPS; TIGR01496 883000159 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 883000160 substrate binding pocket [chemical binding]; other site 883000161 dimer interface [polypeptide binding]; other site 883000162 inhibitor binding site; inhibition site 883000163 Uncharacterized conserved protein [Function unknown]; Region: COG1624 883000164 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 883000165 YbbR-like protein; Region: YbbR; pfam07949 883000166 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 883000167 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 883000168 active site 883000169 substrate binding site [chemical binding]; other site 883000170 metal binding site [ion binding]; metal-binding site 883000171 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 883000172 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 883000173 active site 883000174 tetramer interface; other site 883000175 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 883000176 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 883000177 ATP binding site [chemical binding]; other site 883000178 putative Mg++ binding site [ion binding]; other site 883000179 helicase superfamily c-terminal domain; Region: HELICc; smart00490 883000180 ATP-binding site [chemical binding]; other site 883000181 Response regulator receiver domain; Region: Response_reg; pfam00072 883000182 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 883000183 active site 883000184 phosphorylation site [posttranslational modification] 883000185 intermolecular recognition site; other site 883000186 dimerization interface [polypeptide binding]; other site 883000187 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 883000188 active site 883000189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883000190 phosphorylation site [posttranslational modification] 883000191 intermolecular recognition site; other site 883000192 dimerization interface [polypeptide binding]; other site 883000193 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 883000194 dimer interface [polypeptide binding]; other site 883000195 phosphorylation site [posttranslational modification] 883000196 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 883000197 ATP binding site [chemical binding]; other site 883000198 Mg2+ binding site [ion binding]; other site 883000199 G-X-G motif; other site 883000200 Response regulator receiver domain; Region: Response_reg; pfam00072 883000201 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 883000202 active site 883000203 phosphorylation site [posttranslational modification] 883000204 intermolecular recognition site; other site 883000205 dimerization interface [polypeptide binding]; other site 883000206 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 883000207 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 883000208 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 883000209 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 883000210 4Fe-4S binding domain; Region: Fer4_6; pfam12837 883000211 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883000212 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883000213 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 883000214 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883000215 Protein of unknown function DUF45; Region: DUF45; pfam01863 883000216 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 883000217 ATP-sulfurylase; Region: ATPS; cd00517 883000218 active site 883000219 HXXH motif; other site 883000220 flexible loop; other site 883000221 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 883000222 S17 interaction site [polypeptide binding]; other site 883000223 S8 interaction site; other site 883000224 16S rRNA interaction site [nucleotide binding]; other site 883000225 streptomycin interaction site [chemical binding]; other site 883000226 23S rRNA interaction site [nucleotide binding]; other site 883000227 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 883000228 30S ribosomal protein S7; Validated; Region: PRK05302 883000229 elongation factor G; Reviewed; Region: PRK00007 883000230 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 883000231 G1 box; other site 883000232 putative GEF interaction site [polypeptide binding]; other site 883000233 GTP/Mg2+ binding site [chemical binding]; other site 883000234 Switch I region; other site 883000235 G2 box; other site 883000236 G3 box; other site 883000237 Switch II region; other site 883000238 G4 box; other site 883000239 G5 box; other site 883000240 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 883000241 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 883000242 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 883000243 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 883000244 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 883000245 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 883000246 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 883000247 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 883000248 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 883000249 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 883000250 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 883000251 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 883000252 putative translocon binding site; other site 883000253 protein-rRNA interface [nucleotide binding]; other site 883000254 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 883000255 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 883000256 G-X-X-G motif; other site 883000257 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 883000258 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 883000259 23S rRNA interface [nucleotide binding]; other site 883000260 5S rRNA interface [nucleotide binding]; other site 883000261 putative antibiotic binding site [chemical binding]; other site 883000262 L25 interface [polypeptide binding]; other site 883000263 L27 interface [polypeptide binding]; other site 883000264 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 883000265 23S rRNA interface [nucleotide binding]; other site 883000266 putative translocon interaction site; other site 883000267 signal recognition particle (SRP54) interaction site; other site 883000268 L23 interface [polypeptide binding]; other site 883000269 trigger factor interaction site; other site 883000270 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 883000271 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 883000272 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 883000273 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 883000274 RNA binding site [nucleotide binding]; other site 883000275 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 883000276 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 883000277 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 883000278 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 883000279 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 883000280 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 883000281 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 883000282 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 883000283 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 883000284 5S rRNA interface [nucleotide binding]; other site 883000285 23S rRNA interface [nucleotide binding]; other site 883000286 L5 interface [polypeptide binding]; other site 883000287 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 883000288 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 883000289 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 883000290 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 883000291 23S rRNA binding site [nucleotide binding]; other site 883000292 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 883000293 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 883000294 SecY translocase; Region: SecY; pfam00344 883000295 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 883000296 active site 883000297 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 883000298 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 883000299 30S ribosomal protein S13; Region: bact_S13; TIGR03631 883000300 30S ribosomal protein S11; Validated; Region: PRK05309 883000301 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 883000302 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 883000303 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 883000304 RNA binding surface [nucleotide binding]; other site 883000305 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 883000306 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 883000307 alphaNTD homodimer interface [polypeptide binding]; other site 883000308 alphaNTD - beta interaction site [polypeptide binding]; other site 883000309 alphaNTD - beta' interaction site [polypeptide binding]; other site 883000310 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 883000311 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 883000312 selenophosphate synthetase; Provisional; Region: PRK00943 883000313 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 883000314 dimerization interface [polypeptide binding]; other site 883000315 putative ATP binding site [chemical binding]; other site 883000316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883000317 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 883000318 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 883000319 putative dimerization interface [polypeptide binding]; other site 883000320 trigger factor; Region: tig; TIGR00115 883000321 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 883000322 Clp protease; Region: CLP_protease; pfam00574 883000323 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 883000324 oligomer interface [polypeptide binding]; other site 883000325 active site residues [active] 883000326 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 883000327 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 883000328 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 883000329 Walker A motif; other site 883000330 ATP binding site [chemical binding]; other site 883000331 Walker B motif; other site 883000332 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 883000333 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 883000334 Found in ATP-dependent protease La (LON); Region: LON; smart00464 883000335 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 883000336 Walker A motif; other site 883000337 ATP binding site [chemical binding]; other site 883000338 Walker B motif; other site 883000339 arginine finger; other site 883000340 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883000341 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883000342 metal binding site 2 [ion binding]; metal-binding site 883000343 putative DNA binding helix; other site 883000344 metal binding site 1 [ion binding]; metal-binding site 883000345 structural Zn2+ binding site [ion binding]; other site 883000346 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 883000347 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 883000348 ABC-ATPase subunit interface; other site 883000349 dimer interface [polypeptide binding]; other site 883000350 putative PBP binding regions; other site 883000351 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 883000352 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 883000353 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 883000354 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 883000355 putative metal binding residues [ion binding]; other site 883000356 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 883000357 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 883000358 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 883000359 prolyl-tRNA synthetase; Provisional; Region: PRK09194 883000360 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 883000361 dimer interface [polypeptide binding]; other site 883000362 motif 1; other site 883000363 active site 883000364 motif 2; other site 883000365 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 883000366 putative deacylase active site [active] 883000367 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 883000368 active site 883000369 motif 3; other site 883000370 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 883000371 anticodon binding site; other site 883000372 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 883000373 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 883000374 generic binding surface II; other site 883000375 generic binding surface I; other site 883000376 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 883000377 Peptidase family M23; Region: Peptidase_M23; pfam01551 883000378 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14067 883000379 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 883000380 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 883000381 substrate binding pocket [chemical binding]; other site 883000382 chain length determination region; other site 883000383 substrate-Mg2+ binding site; other site 883000384 catalytic residues [active] 883000385 aspartate-rich region 1; other site 883000386 active site lid residues [active] 883000387 aspartate-rich region 2; other site 883000388 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 883000389 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 883000390 TPP-binding site; other site 883000391 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 883000392 PYR/PP interface [polypeptide binding]; other site 883000393 dimer interface [polypeptide binding]; other site 883000394 TPP binding site [chemical binding]; other site 883000395 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 883000396 Cache domain; Region: Cache_1; pfam02743 883000397 PAS domain; Region: PAS_9; pfam13426 883000398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883000399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883000400 dimer interface [polypeptide binding]; other site 883000401 putative CheW interface [polypeptide binding]; other site 883000402 MarC family integral membrane protein; Region: MarC; cl00919 883000403 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 883000404 active site 883000405 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 883000406 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 883000407 active site 883000408 PHP Thumb interface [polypeptide binding]; other site 883000409 metal binding site [ion binding]; metal-binding site 883000410 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 883000411 generic binding surface II; other site 883000412 generic binding surface I; other site 883000413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883000414 Zn2+ binding site [ion binding]; other site 883000415 Mg2+ binding site [ion binding]; other site 883000416 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 883000417 S-adenosylmethionine binding site [chemical binding]; other site 883000418 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 883000419 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 883000420 motif II; other site 883000421 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 883000422 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 883000423 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 883000424 NAD binding site [chemical binding]; other site 883000425 homodimer interface [polypeptide binding]; other site 883000426 active site 883000427 substrate binding site [chemical binding]; other site 883000428 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 883000429 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 883000430 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 883000431 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 883000432 NADP binding site [chemical binding]; other site 883000433 active site 883000434 putative substrate binding site [chemical binding]; other site 883000435 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 883000436 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 883000437 NAD binding site [chemical binding]; other site 883000438 substrate binding site [chemical binding]; other site 883000439 homodimer interface [polypeptide binding]; other site 883000440 active site 883000441 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 883000442 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 883000443 active site 883000444 C-terminal domain interface [polypeptide binding]; other site 883000445 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 883000446 active site 883000447 N-terminal domain interface [polypeptide binding]; other site 883000448 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 883000449 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 883000450 active site residue [active] 883000451 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 883000452 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 883000453 active site 883000454 motif I; other site 883000455 motif II; other site 883000456 YGGT family; Region: YGGT; pfam02325 883000457 DivIVA domain; Region: DivI1A_domain; TIGR03544 883000458 DivIVA protein; Region: DivIVA; pfam05103 883000459 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 883000460 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 883000461 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883000462 PYR/PP interface [polypeptide binding]; other site 883000463 dimer interface [polypeptide binding]; other site 883000464 TPP binding site [chemical binding]; other site 883000465 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 883000466 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 883000467 TPP-binding site [chemical binding]; other site 883000468 dimer interface [polypeptide binding]; other site 883000469 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 883000470 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 883000471 putative valine binding site [chemical binding]; other site 883000472 dimer interface [polypeptide binding]; other site 883000473 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 883000474 ketol-acid reductoisomerase; Provisional; Region: PRK05479 883000475 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 883000476 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 883000477 Predicted flavoprotein [General function prediction only]; Region: COG0431 883000478 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 883000479 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 883000480 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 883000481 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883000482 active site 883000483 Predicted integral membrane protein [Function unknown]; Region: COG0392 883000484 M28 Zn-Peptidases; Region: M28_like_3; cd05644 883000485 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 883000486 active site 883000487 metal binding site [ion binding]; metal-binding site 883000488 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883000489 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883000490 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883000491 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 883000492 molybdopterin cofactor binding site; other site 883000493 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 883000494 molybdopterin cofactor binding site; other site 883000495 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 883000496 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883000497 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 883000498 DNA binding residues [nucleotide binding] 883000499 NMT1-like family; Region: NMT1_2; pfam13379 883000500 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 883000501 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 883000502 nucleoside/Zn binding site; other site 883000503 dimer interface [polypeptide binding]; other site 883000504 catalytic motif [active] 883000505 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 883000506 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 883000507 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883000508 Beta-Casp domain; Region: Beta-Casp; smart01027 883000509 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 883000510 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 883000511 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 883000512 S-adenosylmethionine binding site [chemical binding]; other site 883000513 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 883000514 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 883000515 active site 883000516 (T/H)XGH motif; other site 883000517 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 883000518 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 883000519 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 883000520 Sulphur transport; Region: Sulf_transp; pfam04143 883000521 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 883000522 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 883000523 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883000524 catalytic residue [active] 883000525 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 883000526 conserved hypothetical protein; Region: TIGR02285 883000527 conserved hypothetical protein; Region: TIGR02285 883000528 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 883000529 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 883000530 Active Sites [active] 883000531 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 883000532 Ferritin-like domain; Region: Ferritin; pfam00210 883000533 ferroxidase diiron center [ion binding]; other site 883000534 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 883000535 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 883000536 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 883000537 dimer interface [polypeptide binding]; other site 883000538 PYR/PP interface [polypeptide binding]; other site 883000539 TPP binding site [chemical binding]; other site 883000540 substrate binding site [chemical binding]; other site 883000541 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 883000542 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 883000543 TPP-binding site [chemical binding]; other site 883000544 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 883000545 DsrE/DsrF-like family; Region: DrsE; cl00672 883000546 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 883000547 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 883000548 putative active site [active] 883000549 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 883000550 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 883000551 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 883000552 putative active site [active] 883000553 putative substrate binding site [chemical binding]; other site 883000554 putative cosubstrate binding site; other site 883000555 catalytic site [active] 883000556 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 883000557 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 883000558 ATP binding site [chemical binding]; other site 883000559 putative Mg++ binding site [ion binding]; other site 883000560 helicase superfamily c-terminal domain; Region: HELICc; smart00490 883000561 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 883000562 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 883000563 Predicted membrane protein [Function unknown]; Region: COG2364 883000564 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 883000565 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 883000566 rRNA binding site [nucleotide binding]; other site 883000567 predicted 30S ribosome binding site; other site 883000568 4Fe-4S binding domain; Region: Fer4; pfam00037 883000569 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883000570 4Fe-4S binding domain; Region: Fer4; pfam00037 883000571 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 883000572 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 883000573 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 883000574 FeS/SAM binding site; other site 883000575 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 883000576 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 883000577 dimerization interface [polypeptide binding]; other site 883000578 putative ATP binding site [chemical binding]; other site 883000579 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 883000580 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883000581 FeS/SAM binding site; other site 883000582 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883000583 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 883000584 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 883000585 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 883000586 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 883000587 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 883000588 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 883000589 glycerate dehydrogenase; Provisional; Region: PRK06487 883000590 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 883000591 putative ligand binding site [chemical binding]; other site 883000592 putative NAD binding site [chemical binding]; other site 883000593 catalytic site [active] 883000594 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 883000595 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 883000596 putative ligand binding site [chemical binding]; other site 883000597 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 883000598 dimerization interface [polypeptide binding]; other site 883000599 PAS domain; Region: PAS; smart00091 883000600 PAS domain S-box; Region: sensory_box; TIGR00229 883000601 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 883000602 putative active site [active] 883000603 heme pocket [chemical binding]; other site 883000604 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883000605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883000606 metal binding site [ion binding]; metal-binding site 883000607 active site 883000608 I-site; other site 883000609 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 883000610 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 883000611 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883000612 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 883000613 phosphorylation site [posttranslational modification] 883000614 dimer interface [polypeptide binding]; other site 883000615 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 883000616 ATP binding site [chemical binding]; other site 883000617 G-X-G motif; other site 883000618 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 883000619 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 883000620 active site 883000621 phosphorylation site [posttranslational modification] 883000622 intermolecular recognition site; other site 883000623 dimerization interface [polypeptide binding]; other site 883000624 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 883000625 Walker A motif; other site 883000626 ATP binding site [chemical binding]; other site 883000627 Walker B motif; other site 883000628 arginine finger; other site 883000629 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883000630 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883000631 Hpt domain; Region: Hpt; pfam01627 883000632 putative binding surface; other site 883000633 active site 883000634 peroxiredoxin; Region: AhpC; TIGR03137 883000635 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 883000636 dimer interface [polypeptide binding]; other site 883000637 decamer (pentamer of dimers) interface [polypeptide binding]; other site 883000638 catalytic triad [active] 883000639 peroxidatic and resolving cysteines [active] 883000640 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 883000641 metal ion-dependent adhesion site (MIDAS); other site 883000642 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 883000643 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883000644 ligand binding site [chemical binding]; other site 883000645 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 883000646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 883000647 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 883000648 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 883000649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883000650 catalytic residue [active] 883000651 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 883000652 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 883000653 tetramer interface [polypeptide binding]; other site 883000654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883000655 catalytic residue [active] 883000656 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 883000657 lipoyl attachment site [posttranslational modification]; other site 883000658 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 883000659 Response regulator receiver domain; Region: Response_reg; pfam00072 883000660 active site 883000661 phosphorylation site [posttranslational modification] 883000662 intermolecular recognition site; other site 883000663 dimerization interface [polypeptide binding]; other site 883000664 phosphoglucomutase; Validated; Region: PRK07564 883000665 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 883000666 active site 883000667 substrate binding site [chemical binding]; other site 883000668 metal binding site [ion binding]; metal-binding site 883000669 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 883000670 DNA methylase; Region: N6_N4_Mtase; pfam01555 883000671 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 883000672 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 883000673 GTP-binding protein YchF; Reviewed; Region: PRK09601 883000674 YchF GTPase; Region: YchF; cd01900 883000675 G1 box; other site 883000676 GTP/Mg2+ binding site [chemical binding]; other site 883000677 Switch I region; other site 883000678 G2 box; other site 883000679 Switch II region; other site 883000680 G3 box; other site 883000681 G4 box; other site 883000682 G5 box; other site 883000683 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 883000684 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883000685 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 883000686 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 883000687 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 883000688 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 883000689 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 883000690 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 883000691 anti sigma factor interaction site; other site 883000692 regulatory phosphorylation site [posttranslational modification]; other site 883000693 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 883000694 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 883000695 FeS/SAM binding site; other site 883000696 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 883000697 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 883000698 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 883000699 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883000700 putative substrate translocation pore; other site 883000701 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 883000702 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 883000703 DRTGG domain; Region: DRTGG; pfam07085 883000704 ribonuclease III; Reviewed; Region: rnc; PRK00102 883000705 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 883000706 dimerization interface [polypeptide binding]; other site 883000707 active site 883000708 metal binding site [ion binding]; metal-binding site 883000709 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 883000710 dsRNA binding site [nucleotide binding]; other site 883000711 flagellin; Provisional; Region: PRK12802 883000712 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883000713 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883000714 FlaG protein; Region: FlaG; cl00591 883000715 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 883000716 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883000717 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 883000718 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883000719 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 883000720 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 883000721 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 883000722 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 883000723 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 883000724 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883000725 putative active site [active] 883000726 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 883000727 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 883000728 Protein of unknown function (DUF342); Region: DUF342; pfam03961 883000729 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 883000730 anti sigma factor interaction site; other site 883000731 regulatory phosphorylation site [posttranslational modification]; other site 883000732 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 883000733 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 883000734 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 883000735 D-tyrosyl-tRNA(Tyr) deacylase; Provisional; Region: PRK05273 883000736 putative active site [active] 883000737 dimerization interface [polypeptide binding]; other site 883000738 putative tRNAtyr binding site [nucleotide binding]; other site 883000739 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 883000740 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883000741 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 883000742 acyl-activating enzyme (AAE) consensus motif; other site 883000743 putative AMP binding site [chemical binding]; other site 883000744 putative active site [active] 883000745 putative CoA binding site [chemical binding]; other site 883000746 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 883000747 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 883000748 substrate binding site; other site 883000749 dimer interface; other site 883000750 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 883000751 homotrimer interaction site [polypeptide binding]; other site 883000752 zinc binding site [ion binding]; other site 883000753 CDP-binding sites; other site 883000754 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 883000755 Putative zinc ribbon domain; Region: DUF164; pfam02591 883000756 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 883000757 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 883000758 Uncharacterized conserved protein [Function unknown]; Region: COG0327 883000759 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 883000760 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 883000761 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 883000762 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883000763 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883000764 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883000765 Tetratricopeptide repeat; Region: TPR_6; pfam13174 883000766 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 883000767 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 883000768 lipoprotein signal peptidase; Provisional; Region: PRK14787 883000769 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 883000770 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883000771 active site 883000772 HIGH motif; other site 883000773 nucleotide binding site [chemical binding]; other site 883000774 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 883000775 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 883000776 active site 883000777 KMSKS motif; other site 883000778 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 883000779 tRNA binding surface [nucleotide binding]; other site 883000780 anticodon binding site; other site 883000781 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 883000782 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 883000783 active site 883000784 catalytic triad [active] 883000785 oxyanion hole [active] 883000786 HupF/HypC family; Region: HupF_HypC; pfam01455 883000787 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 883000788 putative substrate-binding site; other site 883000789 nickel binding site [ion binding]; other site 883000790 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 883000791 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 883000792 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 883000793 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 883000794 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 883000795 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 883000796 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 883000797 putative substrate-binding site; other site 883000798 nickel binding site [ion binding]; other site 883000799 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 883000800 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 883000801 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 883000802 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 883000803 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 883000804 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 883000805 active site 883000806 catalytic residues [active] 883000807 metal binding site [ion binding]; metal-binding site 883000808 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 883000809 aspartate kinase; Reviewed; Region: PRK06635 883000810 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 883000811 putative catalytic residues [active] 883000812 putative nucleotide binding site [chemical binding]; other site 883000813 putative aspartate binding site [chemical binding]; other site 883000814 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 883000815 putative allosteric regulatory site; other site 883000816 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 883000817 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 883000818 FOG: CBS domain [General function prediction only]; Region: COG0517 883000819 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 883000820 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 883000821 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 883000822 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14657 883000823 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 883000824 active site 883000825 hydrophilic channel; other site 883000826 dimerization interface [polypeptide binding]; other site 883000827 catalytic residues [active] 883000828 active site lid [active] 883000829 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 883000830 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 883000831 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 883000832 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 883000833 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 883000834 putative CheA interaction surface; other site 883000835 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 883000836 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 883000837 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 883000838 ATP binding site [chemical binding]; other site 883000839 putative Mg++ binding site [ion binding]; other site 883000840 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 883000841 nucleotide binding region [chemical binding]; other site 883000842 ATP-binding site [chemical binding]; other site 883000843 TRCF domain; Region: TRCF; pfam03461 883000844 SurA N-terminal domain; Region: SurA_N_3; cl07813 883000845 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 883000846 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 883000847 SurA N-terminal domain; Region: SurA_N; pfam09312 883000848 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 883000849 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 883000850 non-specific DNA binding site [nucleotide binding]; other site 883000851 salt bridge; other site 883000852 sequence-specific DNA binding site [nucleotide binding]; other site 883000853 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 883000854 Recombination protein O N terminal; Region: RecO_N; pfam11967 883000855 Recombination protein O C terminal; Region: RecO_C; pfam02565 883000856 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 883000857 dimer interface [polypeptide binding]; other site 883000858 motif 1; other site 883000859 active site 883000860 motif 2; other site 883000861 motif 3; other site 883000862 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 883000863 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 883000864 adenylate kinase; Provisional; Region: PRK14529 883000865 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 883000866 AMP-binding site [chemical binding]; other site 883000867 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 883000868 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 883000869 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 883000870 Ligand Binding Site [chemical binding]; other site 883000871 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 883000872 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 883000873 tRNA; other site 883000874 putative tRNA binding site [nucleotide binding]; other site 883000875 putative NADP binding site [chemical binding]; other site 883000876 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 883000877 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 883000878 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 883000879 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 883000880 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 883000881 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 883000882 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 883000883 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 883000884 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883000885 substrate binding pocket [chemical binding]; other site 883000886 membrane-bound complex binding site; other site 883000887 hinge residues; other site 883000888 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 883000889 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883000890 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 883000891 dimerization interface [polypeptide binding]; other site 883000892 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883000893 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883000894 dimer interface [polypeptide binding]; other site 883000895 putative CheW interface [polypeptide binding]; other site 883000896 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 883000897 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 883000898 feedback inhibition sensing region; other site 883000899 homohexameric interface [polypeptide binding]; other site 883000900 nucleotide binding site [chemical binding]; other site 883000901 N-acetyl-L-glutamate binding site [chemical binding]; other site 883000902 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 883000903 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 883000904 Walker A motif; other site 883000905 ATP binding site [chemical binding]; other site 883000906 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 883000907 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 883000908 Walker B motif; other site 883000909 arginine finger; other site 883000910 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 883000911 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 883000912 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 883000913 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 883000914 protein binding site [polypeptide binding]; other site 883000915 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 883000916 protein binding site [polypeptide binding]; other site 883000917 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 883000918 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 883000919 RNA binding site [nucleotide binding]; other site 883000920 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 883000921 RNA binding site [nucleotide binding]; other site 883000922 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 883000923 RNA binding site [nucleotide binding]; other site 883000924 domain interface; other site 883000925 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 883000926 RNA binding site [nucleotide binding]; other site 883000927 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 883000928 RNA binding site [nucleotide binding]; other site 883000929 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 883000930 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 883000931 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883000932 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 883000933 AAA domain; Region: AAA_32; pfam13654 883000934 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883000935 Protein of unknown function, DUF485; Region: DUF485; pfam04341 883000936 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 883000937 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 883000938 Na binding site [ion binding]; other site 883000939 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 883000940 FOG: CBS domain [General function prediction only]; Region: COG0517 883000941 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 883000942 metal binding triad; other site 883000943 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 883000944 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 883000945 ligand binding site [chemical binding]; other site 883000946 flexible hinge region; other site 883000947 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 883000948 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 883000949 metal binding triad; other site 883000950 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 883000951 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 883000952 active site 883000953 catalytic site [active] 883000954 substrate binding site [chemical binding]; other site 883000955 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883000956 thiosulfate reductase PhsA; Provisional; Region: PRK15488 883000957 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 883000958 putative [Fe4-S4] binding site [ion binding]; other site 883000959 putative molybdopterin cofactor binding site [chemical binding]; other site 883000960 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 883000961 putative molybdopterin cofactor binding site; other site 883000962 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 883000963 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883000964 dimer interface [polypeptide binding]; other site 883000965 active site 883000966 metal binding site [ion binding]; metal-binding site 883000967 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 883000968 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 883000969 Cysteine-rich domain; Region: CCG; pfam02754 883000970 Cysteine-rich domain; Region: CCG; pfam02754 883000971 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 883000972 4Fe-4S binding domain; Region: Fer4; pfam00037 883000973 4Fe-4S binding domain; Region: Fer4_6; pfam12837 883000974 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 883000975 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 883000976 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 883000977 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 883000978 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 883000979 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 883000980 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 883000981 FAD binding pocket [chemical binding]; other site 883000982 FAD binding motif [chemical binding]; other site 883000983 phosphate binding motif [ion binding]; other site 883000984 beta-alpha-beta structure motif; other site 883000985 NAD binding pocket [chemical binding]; other site 883000986 Iron coordination center [ion binding]; other site 883000987 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 883000988 diiron binding motif [ion binding]; other site 883000989 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 883000990 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883000991 putative active site [active] 883000992 metal binding site [ion binding]; metal-binding site 883000993 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883000994 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 883000995 putative active site [active] 883000996 heme pocket [chemical binding]; other site 883000997 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 883000998 dimer interface [polypeptide binding]; other site 883000999 phosphorylation site [posttranslational modification] 883001000 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 883001001 ATP binding site [chemical binding]; other site 883001002 Mg2+ binding site [ion binding]; other site 883001003 G-X-G motif; other site 883001004 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883001005 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 883001006 active site 883001007 phosphorylation site [posttranslational modification] 883001008 intermolecular recognition site; other site 883001009 dimerization interface [polypeptide binding]; other site 883001010 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 883001011 Walker A motif; other site 883001012 ATP binding site [chemical binding]; other site 883001013 Walker B motif; other site 883001014 arginine finger; other site 883001015 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883001016 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 883001017 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 883001018 active site 883001019 HIGH motif; other site 883001020 nucleotide binding site [chemical binding]; other site 883001021 active site 883001022 KMSKS motif; other site 883001023 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883001024 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883001025 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 883001026 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 883001027 putative acyl-acceptor binding pocket; other site 883001028 recombination factor protein RarA; Reviewed; Region: PRK13342 883001029 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 883001030 Walker A motif; other site 883001031 ATP binding site [chemical binding]; other site 883001032 Walker B motif; other site 883001033 arginine finger; other site 883001034 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 883001035 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 883001036 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 883001037 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 883001038 GAF domain; Region: GAF; pfam01590 883001039 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883001040 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883001041 GAF domain; Region: GAF_3; pfam13492 883001042 rod shape-determining protein MreB; Provisional; Region: PRK13930 883001043 MreB and similar proteins; Region: MreB_like; cd10225 883001044 nucleotide binding site [chemical binding]; other site 883001045 Mg binding site [ion binding]; other site 883001046 putative protofilament interaction site [polypeptide binding]; other site 883001047 RodZ interaction site [polypeptide binding]; other site 883001048 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 883001049 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 883001050 active site 883001051 dimerization interface [polypeptide binding]; other site 883001052 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 883001053 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 883001054 nudix motif; other site 883001055 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 883001056 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 883001057 triosephosphate isomerase; Provisional; Region: PRK14565 883001058 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 883001059 substrate binding site [chemical binding]; other site 883001060 dimer interface [polypeptide binding]; other site 883001061 catalytic triad [active] 883001062 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 883001063 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 883001064 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883001065 substrate binding pocket [chemical binding]; other site 883001066 membrane-bound complex binding site; other site 883001067 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 883001068 sequence-specific DNA binding site [nucleotide binding]; other site 883001069 salt bridge; other site 883001070 Predicted transcriptional regulator [Transcription]; Region: COG2932 883001071 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 883001072 Catalytic site [active] 883001073 diaminopimelate decarboxylase; Region: lysA; TIGR01048 883001074 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 883001075 active site 883001076 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883001077 substrate binding site [chemical binding]; other site 883001078 catalytic residues [active] 883001079 dimer interface [polypeptide binding]; other site 883001080 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 883001081 MutS domain I; Region: MutS_I; pfam01624 883001082 MutS domain II; Region: MutS_II; pfam05188 883001083 MutS domain III; Region: MutS_III; pfam05192 883001084 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 883001085 Walker A/P-loop; other site 883001086 ATP binding site [chemical binding]; other site 883001087 Q-loop/lid; other site 883001088 ABC transporter signature motif; other site 883001089 Walker B; other site 883001090 D-loop; other site 883001091 H-loop/switch region; other site 883001092 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 883001093 binding surface 883001094 TPR motif; other site 883001095 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 883001096 nucleotide binding site/active site [active] 883001097 HIT family signature motif; other site 883001098 catalytic residue [active] 883001099 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 883001100 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 883001101 FOG: CBS domain [General function prediction only]; Region: COG0517 883001102 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 883001103 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 883001104 metal binding triad [ion binding]; metal-binding site 883001105 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 883001106 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 883001107 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 883001108 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 883001109 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 883001110 active site 883001111 DNA binding site [nucleotide binding] 883001112 Int/Topo IB signature motif; other site 883001113 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883001115 dimer interface [polypeptide binding]; other site 883001116 putative CheW interface [polypeptide binding]; other site 883001117 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 883001118 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 883001119 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 883001120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883001121 homodimer interface [polypeptide binding]; other site 883001122 catalytic residue [active] 883001123 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 883001124 catalytic center binding site [active] 883001125 ATP binding site [chemical binding]; other site 883001126 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 883001127 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 883001128 active site 883001129 intersubunit interactions; other site 883001130 catalytic residue [active] 883001131 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 883001132 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 883001133 putative acyl-acceptor binding pocket; other site 883001134 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 883001135 putative acyl-acceptor binding pocket; other site 883001136 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 883001137 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 883001138 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 883001139 Walker A/P-loop; other site 883001140 ATP binding site [chemical binding]; other site 883001141 Q-loop/lid; other site 883001142 ABC transporter signature motif; other site 883001143 Walker B; other site 883001144 D-loop; other site 883001145 H-loop/switch region; other site 883001146 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 883001147 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 883001148 CPxP motif; other site 883001149 DsrE/DsrF-like family; Region: DrsE; pfam02635 883001150 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 883001151 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 883001152 RNA binding surface [nucleotide binding]; other site 883001153 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 883001154 active site 883001155 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 883001156 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 883001157 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 883001158 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 883001159 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 883001160 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 883001161 elongation factor P; Validated; Region: PRK00529 883001162 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 883001163 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 883001164 RNA binding site [nucleotide binding]; other site 883001165 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 883001166 RNA binding site [nucleotide binding]; other site 883001167 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 883001168 Dehydroquinase class II; Region: DHquinase_II; pfam01220 883001169 trimer interface [polypeptide binding]; other site 883001170 active site 883001171 dimer interface [polypeptide binding]; other site 883001172 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 883001173 G1 box; other site 883001174 GTP/Mg2+ binding site [chemical binding]; other site 883001175 Switch I region; other site 883001176 G2 box; other site 883001177 G3 box; other site 883001178 Switch II region; other site 883001179 G4 box; other site 883001180 G5 box; other site 883001181 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 883001182 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 883001183 Predicted permeases [General function prediction only]; Region: COG0795 883001184 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 883001185 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 883001186 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 883001187 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 883001188 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 883001189 L-lactate permease; Region: Lactate_perm; cl00701 883001190 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 883001191 PhoU domain; Region: PhoU; pfam01895 883001192 PhoU domain; Region: PhoU; pfam01895 883001193 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 883001194 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 883001195 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 883001196 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883001197 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 883001198 substrate binding pocket [chemical binding]; other site 883001199 membrane-bound complex binding site; other site 883001200 hinge residues; other site 883001201 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883001202 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 883001203 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 883001204 active site clefts [active] 883001205 zinc binding site [ion binding]; other site 883001206 dimer interface [polypeptide binding]; other site 883001207 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 883001208 dimerization interface [polypeptide binding]; other site 883001209 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 883001210 dimer interface [polypeptide binding]; other site 883001211 phosphorylation site [posttranslational modification] 883001212 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 883001213 ATP binding site [chemical binding]; other site 883001214 Mg2+ binding site [ion binding]; other site 883001215 G-X-G motif; other site 883001216 Response regulator receiver domain; Region: Response_reg; pfam00072 883001217 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 883001218 active site 883001219 phosphorylation site [posttranslational modification] 883001220 intermolecular recognition site; other site 883001221 dimerization interface [polypeptide binding]; other site 883001222 Cation efflux family; Region: Cation_efflux; cl00316 883001223 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 883001224 Cation efflux family; Region: Cation_efflux; cl00316 883001225 Cation efflux family; Region: Cation_efflux; pfam01545 883001226 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 883001227 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 883001228 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 883001229 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 883001230 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 883001231 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883001232 Cysteine-rich domain; Region: CCG; pfam02754 883001233 Cysteine-rich domain; Region: CCG; pfam02754 883001234 malonic semialdehyde reductase; Provisional; Region: PRK10538 883001235 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 883001236 putative NAD(P) binding site [chemical binding]; other site 883001237 homodimer interface [polypeptide binding]; other site 883001238 homotetramer interface [polypeptide binding]; other site 883001239 active site 883001240 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 883001241 Tetratricopeptide repeat; Region: TPR_18; pfam13512 883001242 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 883001243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 883001244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 883001245 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 883001246 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 883001247 catalytic residues [active] 883001248 UGMP family protein; Validated; Region: PRK09604 883001249 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 883001250 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 883001251 AMP binding site [chemical binding]; other site 883001252 metal binding site [ion binding]; metal-binding site 883001253 active site 883001254 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 883001255 TPR motif; other site 883001256 binding surface 883001257 Tetratricopeptide repeat; Region: TPR_16; pfam13432 883001258 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 883001259 Septum formation initiator; Region: DivIC; pfam04977 883001260 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 883001261 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 883001262 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 883001263 Walker A motif; other site 883001264 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883001265 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 883001266 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 883001267 S-adenosylmethionine binding site [chemical binding]; other site 883001268 FOG: CBS domain [General function prediction only]; Region: COG0517 883001269 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 883001270 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 883001271 Peptidase family M23; Region: Peptidase_M23; pfam01551 883001272 Uncharacterized conserved protein [Function unknown]; Region: COG3189 883001273 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883001274 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 883001275 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 883001276 pyruvate carboxylase; Reviewed; Region: PRK12999 883001277 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883001278 ATP-grasp domain; Region: ATP-grasp_4; cl17255 883001279 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 883001280 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 883001281 active site 883001282 catalytic residues [active] 883001283 metal binding site [ion binding]; metal-binding site 883001284 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 883001285 carboxyltransferase (CT) interaction site; other site 883001286 biotinylation site [posttranslational modification]; other site 883001287 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 883001288 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 883001289 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 883001290 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 883001291 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 883001292 active site 883001293 NTP binding site [chemical binding]; other site 883001294 metal binding triad [ion binding]; metal-binding site 883001295 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 883001296 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 883001297 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 883001298 DHHA2 domain; Region: DHHA2; pfam02833 883001299 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 883001300 active site 883001301 phosphorylation site [posttranslational modification] 883001302 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; cd00006 883001303 active site 883001304 active pocket/dimerization site; other site 883001305 phosphorylation site [posttranslational modification] 883001306 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 883001307 AAA domain; Region: AAA_18; pfam13238 883001308 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 883001309 active site 883001310 phosphorylation site [posttranslational modification] 883001311 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 883001312 30S subunit binding site; other site 883001313 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 883001314 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 883001315 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 883001316 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 883001317 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 883001318 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 883001319 Walker A/P-loop; other site 883001320 ATP binding site [chemical binding]; other site 883001321 Q-loop/lid; other site 883001322 ABC transporter signature motif; other site 883001323 Walker B; other site 883001324 D-loop; other site 883001325 H-loop/switch region; other site 883001326 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 883001327 OstA-like protein; Region: OstA; pfam03968 883001328 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 883001329 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 883001330 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 883001331 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 883001332 CTP synthetase; Validated; Region: pyrG; PRK05380 883001333 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 883001334 Catalytic site [active] 883001335 active site 883001336 UTP binding site [chemical binding]; other site 883001337 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 883001338 active site 883001339 putative oxyanion hole; other site 883001340 catalytic triad [active] 883001341 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 883001342 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883001343 conserved cys residue [active] 883001344 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 883001345 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 883001346 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883001347 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 883001348 Soluble P-type ATPase [General function prediction only]; Region: COG4087 883001349 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 883001350 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 883001351 phosphoglyceromutase; Provisional; Region: PRK05434 883001352 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 883001353 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 883001354 FMN binding site [chemical binding]; other site 883001355 dimer interface [polypeptide binding]; other site 883001356 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 883001357 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883001358 acyl-activating enzyme (AAE) consensus motif; other site 883001359 AMP binding site [chemical binding]; other site 883001360 active site 883001361 CoA binding site [chemical binding]; other site 883001362 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883001363 putative glutamate synthase subunit beta; Provisional; Region: PRK12770 883001364 ACT domain-containing protein [General function prediction only]; Region: COG4747 883001365 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 883001366 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 883001367 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 883001368 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883001369 molybdopterin cofactor binding site; other site 883001370 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 883001371 molybdopterin cofactor binding site; other site 883001372 NAD synthetase; Provisional; Region: PRK13981 883001373 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 883001374 multimer interface [polypeptide binding]; other site 883001375 active site 883001376 catalytic triad [active] 883001377 protein interface 1 [polypeptide binding]; other site 883001378 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 883001379 homodimer interface [polypeptide binding]; other site 883001380 NAD binding pocket [chemical binding]; other site 883001381 ATP binding pocket [chemical binding]; other site 883001382 Mg binding site [ion binding]; other site 883001383 active-site loop [active] 883001384 dihydrodipicolinate reductase; Provisional; Region: PRK00048 883001385 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 883001386 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 883001387 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 883001388 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 883001389 nucleotide binding pocket [chemical binding]; other site 883001390 K-X-D-G motif; other site 883001391 catalytic site [active] 883001392 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 883001393 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 883001394 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 883001395 Dimer interface [polypeptide binding]; other site 883001396 BRCT sequence motif; other site 883001397 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 883001398 active site 883001399 Ion channel; Region: Ion_trans_2; pfam07885 883001400 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883001401 TrkA-N domain; Region: TrkA_N; pfam02254 883001402 TrkA-C domain; Region: TrkA_C; pfam02080 883001403 excinuclease ABC subunit B; Provisional; Region: PRK05298 883001404 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 883001405 ATP binding site [chemical binding]; other site 883001406 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 883001407 nucleotide binding region [chemical binding]; other site 883001408 ATP-binding site [chemical binding]; other site 883001409 Ultra-violet resistance protein B; Region: UvrB; pfam12344 883001410 UvrB/uvrC motif; Region: UVR; pfam02151 883001411 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 883001412 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 883001413 Clp amino terminal domain; Region: Clp_N; pfam02861 883001414 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 883001415 Walker A motif; other site 883001416 ATP binding site [chemical binding]; other site 883001417 Walker B motif; other site 883001418 arginine finger; other site 883001419 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 883001420 Walker A motif; other site 883001421 ATP binding site [chemical binding]; other site 883001422 Walker B motif; other site 883001423 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 883001424 Uncharacterized conserved protein [Function unknown]; Region: COG2127 883001425 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 883001426 putative active site [active] 883001427 putative metal binding residues [ion binding]; other site 883001428 signature motif; other site 883001429 putative triphosphate binding site [ion binding]; other site 883001430 dimer interface [polypeptide binding]; other site 883001431 CrcB-like protein; Region: CRCB; cl09114 883001432 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 883001433 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 883001434 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 883001435 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 883001436 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 883001437 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 883001438 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 883001439 active site 883001440 phosphorylation site [posttranslational modification] 883001441 intermolecular recognition site; other site 883001442 dimerization interface [polypeptide binding]; other site 883001443 CheB methylesterase; Region: CheB_methylest; pfam01339 883001444 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 883001445 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 883001446 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 883001447 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 883001448 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 883001449 putative binding surface; other site 883001450 active site 883001451 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 883001452 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 883001453 ATP binding site [chemical binding]; other site 883001454 Mg2+ binding site [ion binding]; other site 883001455 G-X-G motif; other site 883001456 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 883001457 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883001458 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 883001459 active site 883001460 phosphorylation site [posttranslational modification] 883001461 intermolecular recognition site; other site 883001462 dimerization interface [polypeptide binding]; other site 883001463 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883001464 dimer interface [polypeptide binding]; other site 883001465 putative CheW interface [polypeptide binding]; other site 883001466 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001467 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883001468 dimer interface [polypeptide binding]; other site 883001469 putative CheW interface [polypeptide binding]; other site 883001470 Heme NO binding; Region: HNOB; pfam07700 883001471 DNA repair protein RadA; Provisional; Region: PRK11823 883001472 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 883001473 Walker A motif; other site 883001474 ATP binding site [chemical binding]; other site 883001475 Walker B motif; other site 883001476 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 883001477 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 883001478 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 883001479 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883001480 active site 883001481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 883001482 Coenzyme A binding pocket [chemical binding]; other site 883001483 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 883001484 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 883001485 catalytic residues [active] 883001486 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 883001487 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 883001488 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 883001489 substrate binding pocket [chemical binding]; other site 883001490 dimer interface [polypeptide binding]; other site 883001491 inhibitor binding site; inhibition site 883001492 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 883001493 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 883001494 B12 binding site [chemical binding]; other site 883001495 cobalt ligand [ion binding]; other site 883001496 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 883001497 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 883001498 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883001499 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 883001500 DNA binding residues [nucleotide binding] 883001501 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 883001502 binding surface 883001503 Tetratricopeptide repeat; Region: TPR_16; pfam13432 883001504 TPR motif; other site 883001505 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 883001506 binding surface 883001507 TPR motif; other site 883001508 TPR repeat; Region: TPR_11; pfam13414 883001509 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 883001510 binding surface 883001511 TPR motif; other site 883001512 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 883001513 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 883001514 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 883001515 active site 883001516 HIGH motif; other site 883001517 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 883001518 KMSKS motif; other site 883001519 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 883001520 tRNA binding surface [nucleotide binding]; other site 883001521 anticodon binding site; other site 883001522 Peptidase family M48; Region: Peptidase_M48; pfam01435 883001523 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 883001524 binding surface 883001525 TPR repeat; Region: TPR_11; pfam13414 883001526 TPR motif; other site 883001527 TPR repeat; Region: TPR_11; pfam13414 883001528 Macro domain, 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 polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 883001529 ADP-ribose binding site [chemical binding]; other site 883001530 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 883001531 active site 883001532 HslU subunit interaction site [polypeptide binding]; other site 883001533 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 883001534 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 883001535 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 883001536 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 883001537 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883001538 active site 883001539 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 883001540 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 883001541 5S rRNA interface [nucleotide binding]; other site 883001542 CTC domain interface [polypeptide binding]; other site 883001543 L16 interface [polypeptide binding]; other site 883001544 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 883001545 putative active site [active] 883001546 catalytic residue [active] 883001547 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 883001548 transcription termination factor Rho; Provisional; Region: rho; PRK09376 883001549 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 883001550 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 883001551 RNA binding site [nucleotide binding]; other site 883001552 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 883001553 multimer interface [polypeptide binding]; other site 883001554 Walker A motif; other site 883001555 ATP binding site [chemical binding]; other site 883001556 Walker B motif; other site 883001557 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 883001558 Multicopper oxidase; Region: Cu-oxidase; pfam00394 883001559 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 883001560 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 883001561 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883001562 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001563 metal binding site [ion binding]; metal-binding site 883001564 active site 883001565 I-site; other site 883001566 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 883001567 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 883001568 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 883001569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883001570 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 883001571 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 883001572 DNA binding residues [nucleotide binding] 883001573 DNA primase; Validated; Region: dnaG; PRK05667 883001574 CHC2 zinc finger; Region: zf-CHC2; cl17510 883001575 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 883001576 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 883001577 active site 883001578 metal binding site [ion binding]; metal-binding site 883001579 interdomain interaction site; other site 883001580 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 883001581 MutS domain III; Region: MutS_III; pfam05192 883001582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883001583 Walker A/P-loop; other site 883001584 ATP binding site [chemical binding]; other site 883001585 Q-loop/lid; other site 883001586 ABC transporter signature motif; other site 883001587 Walker B; other site 883001588 D-loop; other site 883001589 H-loop/switch region; other site 883001590 Smr domain; Region: Smr; pfam01713 883001591 Yqey-like protein; Region: YqeY; pfam09424 883001592 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 883001593 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 883001594 IHF dimer interface [polypeptide binding]; other site 883001595 IHF - DNA interface [nucleotide binding]; other site 883001596 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 883001597 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 883001598 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 883001599 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 883001600 elongation factor G; Reviewed; Region: PRK12740 883001601 G1 box; other site 883001602 putative GEF interaction site [polypeptide binding]; other site 883001603 GTP/Mg2+ binding site [chemical binding]; other site 883001604 Switch I region; other site 883001605 G2 box; other site 883001606 G3 box; other site 883001607 Switch II region; other site 883001608 G4 box; other site 883001609 G5 box; other site 883001610 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 883001611 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 883001612 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 883001613 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 883001614 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 883001615 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 883001616 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883001617 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 883001618 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883001619 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883001620 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001621 metal binding site [ion binding]; metal-binding site 883001622 active site 883001623 I-site; other site 883001624 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 883001625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 883001626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883001627 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 883001628 dimerization interface [polypeptide binding]; other site 883001629 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 883001630 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 883001631 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883001632 DNA-binding site [nucleotide binding]; DNA binding site 883001633 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 883001634 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 883001635 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 883001636 motif II; other site 883001637 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 883001638 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883001639 PYR/PP interface [polypeptide binding]; other site 883001640 dimer interface [polypeptide binding]; other site 883001641 TPP binding site [chemical binding]; other site 883001642 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 883001643 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 883001644 TPP-binding site [chemical binding]; other site 883001645 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 883001646 aminotransferase; Validated; Region: PRK07678 883001647 inhibitor-cofactor binding pocket; inhibition site 883001648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883001649 catalytic residue [active] 883001650 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 883001651 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 883001652 hexamer interface [polypeptide binding]; other site 883001653 ligand binding site [chemical binding]; other site 883001654 putative active site [active] 883001655 NAD(P) binding site [chemical binding]; other site 883001656 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 883001657 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 883001658 Walker A/P-loop; other site 883001659 ATP binding site [chemical binding]; other site 883001660 Q-loop/lid; other site 883001661 ABC transporter signature motif; other site 883001662 Walker B; other site 883001663 D-loop; other site 883001664 H-loop/switch region; other site 883001665 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 883001666 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 883001667 substrate binding pocket [chemical binding]; other site 883001668 membrane-bound complex binding site; other site 883001669 hinge residues; other site 883001670 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 883001671 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 883001672 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 883001673 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 883001674 dimer interface [polypeptide binding]; other site 883001675 conserved gate region; other site 883001676 putative PBP binding loops; other site 883001677 ABC-ATPase subunit interface; other site 883001678 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 883001679 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 883001680 Walker A/P-loop; other site 883001681 ATP binding site [chemical binding]; other site 883001682 Q-loop/lid; other site 883001683 ABC transporter signature motif; other site 883001684 Walker B; other site 883001685 D-loop; other site 883001686 H-loop/switch region; other site 883001687 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 883001688 MgtE intracellular N domain; Region: MgtE_N; smart00924 883001689 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 883001690 Divalent cation transporter; Region: MgtE; cl00786 883001691 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 883001692 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 883001693 dimerization interface [polypeptide binding]; other site 883001694 active site 883001695 quinolinate synthetase; Provisional; Region: PRK09375 883001696 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 883001697 L-aspartate oxidase; Provisional; Region: PRK06175 883001698 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 883001699 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 883001700 AIR carboxylase; Region: AIRC; smart01001 883001701 Protein of unknown function DUF111; Region: DUF111; cl03398 883001702 Protein of unknown function DUF111; Region: DUF111; pfam01969 883001703 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 883001704 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 883001705 active site 883001706 catalytic tetrad [active] 883001707 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 883001708 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 883001709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883001710 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883001711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883001712 UbiA prenyltransferase family; Region: UbiA; pfam01040 883001713 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 883001714 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 883001715 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 883001716 Cytochrome c; Region: Cytochrom_C; cl11414 883001717 Cytochrome c; Region: Cytochrom_C; pfam00034 883001718 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 883001719 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 883001720 Subunit I/III interface [polypeptide binding]; other site 883001721 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 883001722 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 883001723 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 883001724 Cu(I) binding site [ion binding]; other site 883001725 Cytochrome c; Region: Cytochrom_C; cl11414 883001726 Cytochrome c; Region: Cytochrom_C; cl11414 883001727 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 883001728 Protein export membrane protein; Region: SecD_SecF; pfam02355 883001729 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 883001730 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 883001731 Preprotein translocase subunit; Region: YajC; pfam02699 883001732 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 883001733 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 883001734 TrkA-N domain; Region: TrkA_N; pfam02254 883001735 TrkA-N domain; Region: TrkA_N; pfam02254 883001736 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 883001737 putative subunit interface; other site 883001738 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 883001739 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 883001740 putative active site [active] 883001741 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 883001742 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 883001743 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 883001744 active site 883001745 FMN binding site [chemical binding]; other site 883001746 substrate binding site [chemical binding]; other site 883001747 3Fe-4S cluster binding site [ion binding]; other site 883001748 Esterase/lipase [General function prediction only]; Region: COG1647 883001749 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 883001750 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 883001751 active site 883001752 putative substrate binding pocket [chemical binding]; other site 883001753 diaminopimelate aminotransferase; Provisional; Region: PRK13983 883001754 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 883001755 metal binding site [ion binding]; metal-binding site 883001756 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 883001757 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 883001758 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 883001759 FOG: CBS domain [General function prediction only]; Region: COG0517 883001760 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 883001761 Transporter associated domain; Region: CorC_HlyC; smart01091 883001762 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 883001763 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 883001764 putative active site [active] 883001765 catalytic triad [active] 883001766 putative dimer interface [polypeptide binding]; other site 883001767 peptide chain release factor 2; Validated; Region: prfB; PRK00578 883001768 This domain is found in peptide chain release factors; Region: PCRF; smart00937 883001769 RF-1 domain; Region: RF-1; pfam00472 883001770 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883001771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001772 metal binding site [ion binding]; metal-binding site 883001773 active site 883001774 I-site; other site 883001775 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 883001776 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 883001777 P-loop; other site 883001778 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 883001779 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 883001780 IHF - DNA interface [nucleotide binding]; other site 883001781 IHF dimer interface [polypeptide binding]; other site 883001782 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 883001783 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 883001784 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 883001785 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 883001786 dihydrodipicolinate synthase; Region: dapA; TIGR00674 883001787 dimer interface [polypeptide binding]; other site 883001788 active site 883001789 catalytic residue [active] 883001790 Cache domain; Region: Cache_1; pfam02743 883001791 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 883001792 dimerization interface [polypeptide binding]; other site 883001793 PAS fold; Region: PAS_4; pfam08448 883001794 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001795 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883001796 dimer interface [polypeptide binding]; other site 883001797 putative CheW interface [polypeptide binding]; other site 883001798 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 883001799 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 883001800 Aspartase; Region: Aspartase; cd01357 883001801 active sites [active] 883001802 tetramer interface [polypeptide binding]; other site 883001803 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 883001804 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 883001805 substrate binding site [chemical binding]; other site 883001806 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 883001807 Clp amino terminal domain; Region: Clp_N; pfam02861 883001808 Clp amino terminal domain; Region: Clp_N; pfam02861 883001809 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 883001810 Walker A motif; other site 883001811 ATP binding site [chemical binding]; other site 883001812 Walker B motif; other site 883001813 arginine finger; other site 883001814 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 883001815 Walker A motif; other site 883001816 ATP binding site [chemical binding]; other site 883001817 Walker B motif; other site 883001818 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 883001819 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 883001820 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883001821 DNA binding residues [nucleotide binding] 883001822 chaperone protein DnaJ; Provisional; Region: PRK14299 883001823 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 883001824 HSP70 interaction site [polypeptide binding]; other site 883001825 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 883001826 dimer interface [polypeptide binding]; other site 883001827 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 883001828 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 883001829 Autotransporter beta-domain; Region: Autotransporter; pfam03797 883001830 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 883001831 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 883001832 tetramer interface [polypeptide binding]; other site 883001833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883001834 catalytic residue [active] 883001835 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 883001836 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 883001837 PhoH-like protein; Region: PhoH; pfam02562 883001838 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 883001839 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 883001840 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883001841 Zn2+ binding site [ion binding]; other site 883001842 Mg2+ binding site [ion binding]; other site 883001843 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 883001844 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 883001845 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 883001846 GatB domain; Region: GatB_Yqey; smart00845 883001847 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 883001848 Protein of unknown function DUF89; Region: DUF89; cl15397 883001849 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 883001850 ATP-NAD kinase; Region: NAD_kinase; pfam01513 883001851 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 883001852 dimer interface [polypeptide binding]; other site 883001853 active site 883001854 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 883001855 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 883001856 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 883001857 domain interfaces; other site 883001858 active site 883001859 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883001860 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 883001861 dimerization interface [polypeptide binding]; other site 883001862 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001863 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883001864 dimer interface [polypeptide binding]; other site 883001865 putative CheW interface [polypeptide binding]; other site 883001866 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 883001867 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 883001868 non-specific DNA binding site [nucleotide binding]; other site 883001869 salt bridge; other site 883001870 sequence-specific DNA binding site [nucleotide binding]; other site 883001871 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 883001872 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 883001873 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 883001874 Probable Catalytic site; other site 883001875 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 883001876 AAA domain; Region: AAA_32; pfam13654 883001877 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883001878 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 883001879 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 883001880 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883001881 putative substrate translocation pore; other site 883001882 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 883001883 Uncharacterized conserved protein [Function unknown]; Region: COG2006 883001884 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 883001885 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 883001886 intracellular protease, PfpI family; Region: PfpI; TIGR01382 883001887 proposed catalytic triad [active] 883001888 conserved cys residue [active] 883001889 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 883001890 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 883001891 dimer interface [polypeptide binding]; other site 883001892 conserved gate region; other site 883001893 putative PBP binding loops; other site 883001894 ABC-ATPase subunit interface; other site 883001895 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 883001896 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 883001897 dimer interface [polypeptide binding]; other site 883001898 conserved gate region; other site 883001899 ABC-ATPase subunit interface; other site 883001900 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 883001901 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 883001902 Walker A/P-loop; other site 883001903 ATP binding site [chemical binding]; other site 883001904 Q-loop/lid; other site 883001905 ABC transporter signature motif; other site 883001906 Walker B; other site 883001907 D-loop; other site 883001908 H-loop/switch region; other site 883001909 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883001910 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 883001911 substrate binding pocket [chemical binding]; other site 883001912 membrane-bound complex binding site; other site 883001913 hinge residues; other site 883001914 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 883001915 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 883001916 active site 883001917 motif I; other site 883001918 motif II; other site 883001919 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 883001920 DAK2 domain; Region: Dak2; pfam02734 883001921 EDD domain protein, DegV family; Region: DegV; TIGR00762 883001922 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 883001923 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 883001924 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 883001925 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 883001926 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 883001927 dimer interface [polypeptide binding]; other site 883001928 PYR/PP interface [polypeptide binding]; other site 883001929 TPP binding site [chemical binding]; other site 883001930 substrate binding site [chemical binding]; other site 883001931 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 883001932 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 883001933 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 883001934 TPP-binding site [chemical binding]; other site 883001935 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 883001936 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 883001937 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 883001938 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 883001939 GAF domain; Region: GAF; pfam01590 883001940 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 883001941 Walker A motif; other site 883001942 ATP binding site [chemical binding]; other site 883001943 Walker B motif; other site 883001944 arginine finger; other site 883001945 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883001946 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 883001947 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 883001948 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 883001949 dimer interface [polypeptide binding]; other site 883001950 PYR/PP interface [polypeptide binding]; other site 883001951 TPP binding site [chemical binding]; other site 883001952 substrate binding site [chemical binding]; other site 883001953 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 883001954 TPP-binding site; other site 883001955 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 883001956 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 883001957 putative catalytic cysteine [active] 883001958 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 883001959 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 883001960 active site 883001961 (T/H)XGH motif; other site 883001962 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 883001963 binding surface 883001964 TPR motif; other site 883001965 TPR repeat; Region: TPR_11; pfam13414 883001966 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883001967 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 883001968 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 883001969 putative active site [active] 883001970 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 883001971 PAS domain S-box; Region: sensory_box; TIGR00229 883001972 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 883001973 putative active site [active] 883001974 heme pocket [chemical binding]; other site 883001975 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883001976 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 883001977 dimer interface [polypeptide binding]; other site 883001978 phosphorylation site [posttranslational modification] 883001979 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 883001980 ATP binding site [chemical binding]; other site 883001981 Mg2+ binding site [ion binding]; other site 883001982 G-X-G motif; other site 883001983 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 883001984 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 883001985 FOG: CBS domain [General function prediction only]; Region: COG0517 883001986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883001987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001988 metal binding site [ion binding]; metal-binding site 883001989 active site 883001990 I-site; other site 883001991 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 883001992 putative binding surface; other site 883001993 active site 883001994 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 883001995 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 883001996 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 883001997 ATP binding site [chemical binding]; other site 883001998 Mg2+ binding site [ion binding]; other site 883001999 G-X-G motif; other site 883002000 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 883002001 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 883002002 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002003 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883002004 dimer interface [polypeptide binding]; other site 883002005 putative CheW interface [polypeptide binding]; other site 883002006 Rrf2 family protein; Region: rrf2_super; TIGR00738 883002007 Transcriptional regulator; Region: Rrf2; pfam02082 883002008 Rrf2 family protein; Region: rrf2_super; TIGR00738 883002009 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 883002010 putative DNA binding site [nucleotide binding]; other site 883002011 putative Zn2+ binding site [ion binding]; other site 883002012 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 883002013 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 883002014 cheY-homologous receiver domain; Region: REC; smart00448 883002015 phosphorylation site [posttranslational modification] 883002016 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 883002017 Sel1-like repeats; Region: SEL1; smart00671 883002018 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883002019 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 883002020 FtsX-like permease family; Region: FtsX; pfam02687 883002021 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883002022 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 883002023 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883002024 Walker A/P-loop; other site 883002025 ATP binding site [chemical binding]; other site 883002026 Q-loop/lid; other site 883002027 ABC transporter signature motif; other site 883002028 Walker B; other site 883002029 D-loop; other site 883002030 H-loop/switch region; other site 883002031 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883002032 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883002033 HlyD family secretion protein; Region: HlyD_3; pfam13437 883002034 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 883002035 catalytic core [active] 883002036 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 883002037 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 883002038 metal-binding site 883002039 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883002040 Zn2+ binding site [ion binding]; other site 883002041 Mg2+ binding site [ion binding]; other site 883002042 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 883002043 XdhC Rossmann domain; Region: XdhC_C; pfam13478 883002044 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883002045 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 883002046 acyl-activating enzyme (AAE) consensus motif; other site 883002047 active site 883002048 AMP binding site [chemical binding]; other site 883002049 CoA binding site [chemical binding]; other site 883002050 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 883002051 FeS/SAM binding site; other site 883002052 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 883002053 Methyltransferase domain; Region: Methyltransf_23; pfam13489 883002054 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 883002055 S-adenosylmethionine binding site [chemical binding]; other site 883002056 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 883002057 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 883002058 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 883002059 catalytic loop [active] 883002060 iron binding site [ion binding]; other site 883002061 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 883002062 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 883002063 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 883002064 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 883002065 putative MPT binding site; other site 883002066 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883002067 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 883002068 [4Fe-4S] binding site [ion binding]; other site 883002069 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 883002070 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 883002071 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 883002072 molybdopterin cofactor binding site; other site 883002073 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883002074 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 883002075 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883002076 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 883002077 [4Fe-4S] binding site [ion binding]; other site 883002078 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 883002079 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 883002080 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 883002081 molybdopterin cofactor binding site; other site 883002082 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883002083 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 883002084 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 883002085 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883002086 heme-binding residues [chemical binding]; other site 883002087 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 883002088 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 883002089 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 883002090 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 883002091 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 883002092 putative active site; other site 883002093 catalytic triad [active] 883002094 putative dimer interface [polypeptide binding]; other site 883002095 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 883002096 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 883002097 active site 883002098 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 883002099 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 883002100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883002101 Walker A/P-loop; other site 883002102 ATP binding site [chemical binding]; other site 883002103 Q-loop/lid; other site 883002104 ABC transporter signature motif; other site 883002105 Walker B; other site 883002106 D-loop; other site 883002107 H-loop/switch region; other site 883002108 TOBE domain; Region: TOBE_2; pfam08402 883002109 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 883002110 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 883002111 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 883002112 dimer interface [polypeptide binding]; other site 883002113 conserved gate region; other site 883002114 putative PBP binding loops; other site 883002115 ABC-ATPase subunit interface; other site 883002116 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 883002117 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 883002118 dimer interface [polypeptide binding]; other site 883002119 conserved gate region; other site 883002120 putative PBP binding loops; other site 883002121 ABC-ATPase subunit interface; other site 883002122 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 883002123 active site 883002124 nucleophile elbow; other site 883002125 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 883002126 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 883002127 dimer interface [polypeptide binding]; other site 883002128 phosphorylation site [posttranslational modification] 883002129 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 883002130 ATP binding site [chemical binding]; other site 883002131 Mg2+ binding site [ion binding]; other site 883002132 G-X-G motif; other site 883002133 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 883002134 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883002135 acyl-activating enzyme (AAE) consensus motif; other site 883002136 active site 883002137 AMP binding site [chemical binding]; other site 883002138 CoA binding site [chemical binding]; other site 883002139 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 883002140 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 883002141 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 883002142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883002143 catalytic residue [active] 883002144 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 883002145 ATP-grasp domain; Region: ATP-grasp_4; cl17255 883002146 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 883002147 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 883002148 ATP-grasp domain; Region: ATP-grasp_4; cl17255 883002149 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 883002150 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 883002151 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 883002152 active site 883002153 phosphorylation site [posttranslational modification] 883002154 intermolecular recognition site; other site 883002155 dimerization interface [polypeptide binding]; other site 883002156 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 883002157 Walker A motif; other site 883002158 ATP binding site [chemical binding]; other site 883002159 Walker B motif; other site 883002160 arginine finger; other site 883002161 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883002162 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 883002163 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 883002164 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 883002165 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 883002166 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 883002167 putative ADP-binding pocket [chemical binding]; other site 883002168 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 883002169 trimer interface [polypeptide binding]; other site 883002170 active site 883002171 substrate binding site [chemical binding]; other site 883002172 CoA binding site [chemical binding]; other site 883002173 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 883002174 trimer interface [polypeptide binding]; other site 883002175 active site 883002176 substrate binding site [chemical binding]; other site 883002177 CoA binding site [chemical binding]; other site 883002178 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 883002179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883002180 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: GT1_like_1; cd04950 883002181 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883002182 putative homodimer interface [polypeptide binding]; other site 883002183 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 883002184 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 883002185 O-Antigen ligase; Region: Wzy_C; pfam04932 883002186 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 883002187 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 883002188 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 883002189 DXD motif; other site 883002190 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 883002191 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 883002192 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883002193 catalytic residue [active] 883002194 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 883002195 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 883002196 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 883002197 putative active site [active] 883002198 putative catalytic site [active] 883002199 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 883002200 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 883002201 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 883002202 Walker A motif; other site 883002203 ATP binding site [chemical binding]; other site 883002204 Walker B motif; other site 883002205 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 883002206 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 883002207 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 883002208 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 883002209 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 883002210 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 883002211 SLBB domain; Region: SLBB; pfam10531 883002212 Bacterial sugar transferase; Region: Bac_transf; pfam02397 883002213 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883002214 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 883002215 binding surface 883002216 TPR motif; other site 883002217 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 883002218 TPR motif; other site 883002219 binding surface 883002220 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 883002221 binding surface 883002222 TPR motif; other site 883002223 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 883002224 binding surface 883002225 TPR motif; other site 883002226 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 883002227 binding surface 883002228 TPR motif; other site 883002229 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 883002230 TPR motif; other site 883002231 binding surface 883002232 hypothetical protein; Provisional; Region: PRK14852 883002233 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 883002234 ATP binding site [chemical binding]; other site 883002235 substrate interface [chemical binding]; other site 883002236 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 883002237 dimer interface [polypeptide binding]; other site 883002238 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 883002239 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 883002240 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883002241 HlyD family secretion protein; Region: HlyD_3; pfam13437 883002242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883002243 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883002244 Walker A/P-loop; other site 883002245 ATP binding site [chemical binding]; other site 883002246 Q-loop/lid; other site 883002247 ABC transporter signature motif; other site 883002248 Walker B; other site 883002249 D-loop; other site 883002250 H-loop/switch region; other site 883002251 DevC protein; Region: devC; TIGR01185 883002252 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883002253 FtsX-like permease family; Region: FtsX; pfam02687 883002254 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883002255 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 883002256 active site 883002257 phosphorylation site [posttranslational modification] 883002258 intermolecular recognition site; other site 883002259 dimerization interface [polypeptide binding]; other site 883002260 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 883002261 Walker A motif; other site 883002262 ATP binding site [chemical binding]; other site 883002263 Walker B motif; other site 883002264 arginine finger; other site 883002265 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883002266 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 883002267 active site 883002268 phosphorylation site [posttranslational modification] 883002269 intermolecular recognition site; other site 883002270 dimerization interface [polypeptide binding]; other site 883002271 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 883002272 Walker A motif; other site 883002273 ATP binding site [chemical binding]; other site 883002274 Walker B motif; other site 883002275 arginine finger; other site 883002276 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883002277 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883002278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883002279 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 883002280 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 883002281 dimer interface [polypeptide binding]; other site 883002282 phosphorylation site [posttranslational modification] 883002283 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 883002284 ATP binding site [chemical binding]; other site 883002285 Mg2+ binding site [ion binding]; other site 883002286 G-X-G motif; other site 883002287 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 883002288 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883002289 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 883002290 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883002291 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883002292 Response regulator receiver domain; Region: Response_reg; pfam00072 883002293 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 883002294 active site 883002295 phosphorylation site [posttranslational modification] 883002296 intermolecular recognition site; other site 883002297 dimerization interface [polypeptide binding]; other site 883002298 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883002299 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883002300 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883002301 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883002302 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 883002303 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 883002304 active site 883002305 metal binding site [ion binding]; metal-binding site 883002306 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 883002307 non-specific DNA binding site [nucleotide binding]; other site 883002308 salt bridge; other site 883002309 Predicted transcriptional regulator [Transcription]; Region: COG2932 883002310 sequence-specific DNA binding site [nucleotide binding]; other site 883002311 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 883002312 Catalytic site [active] 883002313 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 883002314 Integrase core domain; Region: rve; pfam00665 883002315 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 883002316 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 883002317 AAA domain; Region: AAA_22; pfam13401 883002318 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 883002319 Mor transcription activator family; Region: Mor; cl02360 883002320 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 883002321 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 883002322 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883002323 catalytic residue [active] 883002324 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 883002325 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 883002326 Protein of unknown function (DUF935); Region: DUF935; pfam06074 883002327 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 883002328 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 883002329 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 883002330 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 883002331 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 883002332 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 883002333 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 883002334 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 883002335 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 883002336 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 883002337 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 883002338 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 883002339 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 883002340 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 883002341 Phage protein GP46; Region: GP46; cl01814 883002342 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 883002343 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 883002344 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 883002345 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 883002346 Ligand binding site; other site 883002347 Putative Catalytic site; other site 883002348 DXD motif; other site 883002349 Uncharacterized conserved protein [Function unknown]; Region: COG0398 883002350 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 883002351 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 883002352 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 883002353 active site 883002354 HIGH motif; other site 883002355 KMSKS motif; other site 883002356 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 883002357 anticodon binding site; other site 883002358 tRNA binding surface [nucleotide binding]; other site 883002359 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 883002360 dimer interface [polypeptide binding]; other site 883002361 putative tRNA-binding site [nucleotide binding]; other site 883002362 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 883002363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 883002364 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883002365 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 883002366 active site 883002367 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 883002368 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 883002369 6-phosphofructokinase; Region: PLN02884 883002370 active site 883002371 ADP/pyrophosphate binding site [chemical binding]; other site 883002372 dimerization interface [polypeptide binding]; other site 883002373 allosteric effector site; other site 883002374 fructose-1,6-bisphosphate binding site; other site 883002375 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 883002376 Family description; Region: UvrD_C_2; pfam13538 883002377 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 883002378 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 883002379 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 883002380 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 883002381 FMN binding site [chemical binding]; other site 883002382 substrate binding site [chemical binding]; other site 883002383 putative catalytic residue [active] 883002384 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 883002385 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 883002386 active site 883002387 DNA binding site [nucleotide binding] 883002388 Int/Topo IB signature motif; other site 883002389 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 883002390 active site 883002391 phosphorylation site [posttranslational modification] 883002392 intermolecular recognition site; other site 883002393 dimerization interface [polypeptide binding]; other site 883002394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883002395 metal binding site [ion binding]; metal-binding site 883002396 active site 883002397 HDOD domain; Region: HDOD; pfam08668 883002398 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883002399 Zn2+ binding site [ion binding]; other site 883002400 Mg2+ binding site [ion binding]; other site 883002401 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 883002402 DNA protecting protein DprA; Region: dprA; TIGR00732 883002403 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883002404 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 883002405 binding surface 883002406 TPR motif; other site 883002407 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 883002408 putative binding surface; other site 883002409 active site 883002410 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 883002411 putative binding surface; other site 883002412 active site 883002413 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 883002414 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 883002415 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 883002416 ATP binding site [chemical binding]; other site 883002417 Mg2+ binding site [ion binding]; other site 883002418 G-X-G motif; other site 883002419 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 883002420 Response regulator receiver domain; Region: Response_reg; pfam00072 883002421 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 883002422 active site 883002423 phosphorylation site [posttranslational modification] 883002424 intermolecular recognition site; other site 883002425 dimerization interface [polypeptide binding]; other site 883002426 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 883002427 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 883002428 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 883002429 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 883002430 Magnesium ion binding site [ion binding]; other site 883002431 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 883002432 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 883002433 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 883002434 HEAT repeats; Region: HEAT_2; pfam13646 883002435 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 883002436 protein binding surface [polypeptide binding]; other site 883002437 HEAT repeats; Region: HEAT_2; pfam13646 883002438 HEAT repeats; Region: HEAT_2; pfam13646 883002439 HEAT repeats; Region: HEAT_2; pfam13646 883002440 HEAT repeats; Region: HEAT_2; pfam13646 883002441 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 883002442 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 883002443 active site 883002444 phosphorylation site [posttranslational modification] 883002445 intermolecular recognition site; other site 883002446 dimerization interface [polypeptide binding]; other site 883002447 CheB methylesterase; Region: CheB_methylest; pfam01339 883002448 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 883002449 NlpC/P60 family; Region: NLPC_P60; pfam00877 883002450 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 883002451 flagellin; Provisional; Region: PRK12802 883002452 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883002453 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883002454 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 883002455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883002456 Zn2+ binding site [ion binding]; other site 883002457 Mg2+ binding site [ion binding]; other site 883002458 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 883002459 synthetase active site [active] 883002460 NTP binding site [chemical binding]; other site 883002461 metal binding site [ion binding]; metal-binding site 883002462 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 883002463 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 883002464 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 883002465 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 883002466 peptide binding site [polypeptide binding]; other site 883002467 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 883002468 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 883002469 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 883002470 ATP binding site [chemical binding]; other site 883002471 putative Mg++ binding site [ion binding]; other site 883002472 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 883002473 nucleotide binding region [chemical binding]; other site 883002474 ATP-binding site [chemical binding]; other site 883002475 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 883002476 putative CheA interaction surface; other site 883002477 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883002478 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883002480 dimer interface [polypeptide binding]; other site 883002481 putative CheW interface [polypeptide binding]; other site 883002482 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 883002483 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 883002484 non-specific DNA binding site [nucleotide binding]; other site 883002485 salt bridge; other site 883002486 sequence-specific DNA binding site [nucleotide binding]; other site 883002487 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 883002488 thiamine phosphate binding site [chemical binding]; other site 883002489 active site 883002490 pyrophosphate binding site [ion binding]; other site 883002491 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 883002492 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 883002493 ATP binding site [chemical binding]; other site 883002494 substrate interface [chemical binding]; other site 883002495 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 883002496 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 883002497 FeS/SAM binding site; other site 883002498 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 883002499 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 883002500 ThiS interaction site; other site 883002501 putative active site [active] 883002502 tetramer interface [polypeptide binding]; other site 883002503 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 883002504 thiS-thiF/thiG interaction site; other site 883002505 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 883002506 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 883002507 Walker A/P-loop; other site 883002508 ATP binding site [chemical binding]; other site 883002509 Q-loop/lid; other site 883002510 ABC transporter signature motif; other site 883002511 Walker B; other site 883002512 D-loop; other site 883002513 H-loop/switch region; other site 883002514 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 883002515 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 883002516 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 883002517 dimer interface [polypeptide binding]; other site 883002518 conserved gate region; other site 883002519 putative PBP binding loops; other site 883002520 ABC-ATPase subunit interface; other site 883002521 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 883002522 Ligand Binding Site [chemical binding]; other site 883002523 EamA-like transporter family; Region: EamA; pfam00892 883002524 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 883002525 EamA-like transporter family; Region: EamA; pfam00892 883002526 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 883002527 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883002528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883002529 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 883002530 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 883002531 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 883002532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883002533 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883002534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883002535 glycerol kinase; Provisional; Region: glpK; PRK00047 883002536 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 883002537 N- and C-terminal domain interface [polypeptide binding]; other site 883002538 active site 883002539 MgATP binding site [chemical binding]; other site 883002540 catalytic site [active] 883002541 metal binding site [ion binding]; metal-binding site 883002542 glycerol binding site [chemical binding]; other site 883002543 homotetramer interface [polypeptide binding]; other site 883002544 homodimer interface [polypeptide binding]; other site 883002545 FBP binding site [chemical binding]; other site 883002546 protein IIAGlc interface [polypeptide binding]; other site 883002547 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 883002548 amphipathic channel; other site 883002549 Asn-Pro-Ala signature motifs; other site 883002550 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 883002551 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 883002552 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 883002553 MarR family; Region: MarR_2; pfam12802 883002554 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 883002555 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 883002556 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 883002557 dimer interface [polypeptide binding]; other site 883002558 ssDNA binding site [nucleotide binding]; other site 883002559 tetramer (dimer of dimers) interface [polypeptide binding]; other site 883002560 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 883002561 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 883002562 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 883002563 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 883002564 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883002565 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 883002566 ATP-grasp domain; Region: ATP-grasp_4; cl17255 883002567 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 883002568 PilZ domain; Region: PilZ; pfam07238 883002569 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883002570 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883002571 ligand binding site [chemical binding]; other site 883002572 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883002573 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883002574 purine nucleoside phosphorylase; Provisional; Region: PRK08202 883002575 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 883002576 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 883002577 G1 box; other site 883002578 putative GEF interaction site [polypeptide binding]; other site 883002579 GTP/Mg2+ binding site [chemical binding]; other site 883002580 Switch I region; other site 883002581 G2 box; other site 883002582 G3 box; other site 883002583 Switch II region; other site 883002584 G4 box; other site 883002585 G5 box; other site 883002586 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 883002587 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 883002588 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883002589 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 883002590 active site 883002591 phosphorylation site [posttranslational modification] 883002592 intermolecular recognition site; other site 883002593 dimerization interface [polypeptide binding]; other site 883002594 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 883002595 Walker A motif; other site 883002596 ATP binding site [chemical binding]; other site 883002597 Walker B motif; other site 883002598 arginine finger; other site 883002599 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883002600 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883002601 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 883002602 putative active site [active] 883002603 heme pocket [chemical binding]; other site 883002604 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 883002605 dimer interface [polypeptide binding]; other site 883002606 phosphorylation site [posttranslational modification] 883002607 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 883002608 ATP binding site [chemical binding]; other site 883002609 G-X-G motif; other site 883002610 Short C-terminal domain; Region: SHOCT; pfam09851 883002611 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 883002612 TPR repeat; Region: TPR_11; pfam13414 883002613 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 883002614 binding surface 883002615 TPR motif; other site 883002616 TPR repeat; Region: TPR_11; pfam13414 883002617 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 883002618 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 883002619 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 883002620 HI0933-like protein; Region: HI0933_like; pfam03486 883002621 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 883002622 Domain of unknown function DUF21; Region: DUF21; pfam01595 883002623 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 883002624 Transporter associated domain; Region: CorC_HlyC; smart01091 883002625 hypothetical protein; Provisional; Region: PRK11019 883002626 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 883002627 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 883002628 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 883002629 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 883002630 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 883002631 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 883002632 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 883002633 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 883002634 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 883002635 Asparaginase [Amino acid transport and metabolism]; Region: COG1446 883002636 active site 883002637 dimer interface [polypeptide binding]; other site 883002638 catalytic nucleophile [active] 883002639 glycogen branching enzyme; Provisional; Region: PRK12313 883002640 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 883002641 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 883002642 active site 883002643 catalytic site [active] 883002644 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 883002645 glycogen synthase; Provisional; Region: glgA; PRK00654 883002646 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 883002647 ADP-binding pocket [chemical binding]; other site 883002648 homodimer interface [polypeptide binding]; other site 883002649 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 883002650 nudix motif; other site 883002651 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883002652 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 883002653 putative active site [active] 883002654 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 883002655 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 883002656 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 883002657 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 883002658 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 883002659 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 883002660 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 883002661 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 883002662 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 883002663 active site 883002664 HIGH motif; other site 883002665 KMSK motif region; other site 883002666 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 883002667 tRNA binding surface [nucleotide binding]; other site 883002668 anticodon binding site; other site 883002669 Sporulation related domain; Region: SPOR; pfam05036 883002670 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 883002671 Permease; Region: Permease; pfam02405 883002672 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 883002673 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 883002674 Walker A/P-loop; other site 883002675 ATP binding site [chemical binding]; other site 883002676 Q-loop/lid; other site 883002677 ABC transporter signature motif; other site 883002678 Walker B; other site 883002679 D-loop; other site 883002680 H-loop/switch region; other site 883002681 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 883002682 mce related protein; Region: MCE; pfam02470 883002683 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 883002684 VacJ like lipoprotein; Region: VacJ; cl01073 883002685 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 883002686 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 883002687 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883002688 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 883002689 substrate binding pocket [chemical binding]; other site 883002690 membrane-bound complex binding site; other site 883002691 hinge residues; other site 883002692 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883002693 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 883002694 dimer interface [polypeptide binding]; other site 883002695 conserved gate region; other site 883002696 putative PBP binding loops; other site 883002697 ABC-ATPase subunit interface; other site 883002698 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883002699 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 883002700 Walker A/P-loop; other site 883002701 ATP binding site [chemical binding]; other site 883002702 Q-loop/lid; other site 883002703 ABC transporter signature motif; other site 883002704 Walker B; other site 883002705 D-loop; other site 883002706 H-loop/switch region; other site 883002707 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 883002708 metal binding triad; other site 883002709 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 883002710 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 883002711 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 883002712 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 883002713 Nitrogen regulatory protein P-II; Region: P-II; smart00938 883002714 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 883002715 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 883002716 dimer interface [polypeptide binding]; other site 883002717 catalytic triad [active] 883002718 peroxidatic and resolving cysteines [active] 883002719 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 883002720 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 883002721 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 883002722 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 883002723 RNA binding site [nucleotide binding]; other site 883002724 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 883002725 TPR motif; other site 883002726 binding surface 883002727 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 883002728 MoaE homodimer interface [polypeptide binding]; other site 883002729 MoaD interaction [polypeptide binding]; other site 883002730 active site residues [active] 883002731 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 883002732 Catalytic site; other site 883002733 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 883002734 Na2 binding site [ion binding]; other site 883002735 putative substrate binding site 1 [chemical binding]; other site 883002736 Na binding site 1 [ion binding]; other site 883002737 putative substrate binding site 2 [chemical binding]; other site 883002738 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 883002739 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 883002740 Ligand Binding Site [chemical binding]; other site 883002741 recombinase A; Provisional; Region: recA; PRK09354 883002742 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 883002743 hexamer interface [polypeptide binding]; other site 883002744 Walker A motif; other site 883002745 ATP binding site [chemical binding]; other site 883002746 Walker B motif; other site 883002747 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 883002748 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 883002749 motif 1; other site 883002750 active site 883002751 motif 2; other site 883002752 motif 3; other site 883002753 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 883002754 DHHA1 domain; Region: DHHA1; pfam02272 883002755 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 883002756 phosphate binding site [ion binding]; other site 883002757 putative substrate binding pocket [chemical binding]; other site 883002758 dimer interface [polypeptide binding]; other site 883002759 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 883002760 PhoU domain; Region: PhoU; pfam01895 883002761 PhoU domain; Region: PhoU; pfam01895 883002762 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 883002763 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 883002764 Walker A/P-loop; other site 883002765 ATP binding site [chemical binding]; other site 883002766 Q-loop/lid; other site 883002767 ABC transporter signature motif; other site 883002768 Walker B; other site 883002769 D-loop; other site 883002770 H-loop/switch region; other site 883002771 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 883002772 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 883002773 active site 883002774 phosphorylation site [posttranslational modification] 883002775 intermolecular recognition site; other site 883002776 dimerization interface [polypeptide binding]; other site 883002777 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 883002778 DNA binding site [nucleotide binding] 883002779 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 883002780 catalytic site [active] 883002781 putative active site [active] 883002782 putative substrate binding site [chemical binding]; other site 883002783 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 883002784 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883002785 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 883002786 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 883002787 trmE is a tRNA modification GTPase; Region: trmE; cd04164 883002788 G1 box; other site 883002789 GTP/Mg2+ binding site [chemical binding]; other site 883002790 Switch I region; other site 883002791 G2 box; other site 883002792 Switch II region; other site 883002793 G3 box; other site 883002794 G4 box; other site 883002795 G5 box; other site 883002796 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 883002797 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 883002798 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 883002799 G-X-X-G motif; other site 883002800 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 883002801 RxxxH motif; other site 883002802 membrane protein insertase; Provisional; Region: PRK01318 883002803 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 883002804 Haemolytic domain; Region: Haemolytic; pfam01809 883002805 Ribonuclease P; Region: Ribonuclease_P; pfam00825 883002806 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 883002807 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 883002808 putative binding surface; other site 883002809 active site 883002810 AP endonuclease family 2; Region: AP2Ec; smart00518 883002811 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 883002812 AP (apurinic/apyrimidinic) site pocket; other site 883002813 DNA interaction; other site 883002814 Metal-binding active site; metal-binding site 883002815 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 883002816 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 883002817 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 883002818 Uncharacterized conserved protein [Function unknown]; Region: COG0398 883002819 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 883002820 glucokinase, proteobacterial type; Region: glk; TIGR00749 883002821 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 883002822 nucleotide binding site [chemical binding]; other site 883002823 PilZ domain; Region: PilZ; pfam07238 883002824 Competence-damaged protein; Region: CinA; pfam02464 883002825 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 883002826 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 883002827 Ligand Binding Site [chemical binding]; other site 883002828 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 883002829 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 883002830 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 883002831 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 883002832 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 883002833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883002834 homodimer interface [polypeptide binding]; other site 883002835 catalytic residue [active] 883002836 cytidylate kinase; Provisional; Region: cmk; PRK00023 883002837 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 883002838 CMP-binding site; other site 883002839 The sites determining sugar specificity; other site 883002840 uracil transporter; Provisional; Region: PRK10720 883002841 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883002842 active site 883002843 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 883002844 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 883002845 RNA binding surface [nucleotide binding]; other site 883002846 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 883002847 active site 883002848 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 883002849 dephospho-CoA kinase; Region: TIGR00152 883002850 CoA-binding site [chemical binding]; other site 883002851 ATP-binding [chemical binding]; other site 883002852 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 883002853 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 883002854 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 883002855 Walker A/P-loop; other site 883002856 ATP binding site [chemical binding]; other site 883002857 Q-loop/lid; other site 883002858 ABC transporter signature motif; other site 883002859 Walker B; other site 883002860 D-loop; other site 883002861 H-loop/switch region; other site 883002862 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 883002863 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 883002864 YCII-related domain; Region: YCII; cl00999 883002865 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 883002866 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 883002867 dimerization interface [polypeptide binding]; other site 883002868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883002870 dimer interface [polypeptide binding]; other site 883002871 putative CheW interface [polypeptide binding]; other site 883002872 Putative exonuclease, RdgC; Region: RdgC; cl01122 883002873 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 883002874 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 883002875 dimer interface [polypeptide binding]; other site 883002876 conserved gate region; other site 883002877 ABC-ATPase subunit interface; other site 883002878 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 883002879 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 883002880 dimer interface [polypeptide binding]; other site 883002881 conserved gate region; other site 883002882 putative PBP binding loops; other site 883002883 ABC-ATPase subunit interface; other site 883002884 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 883002885 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 883002886 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 883002887 Walker A/P-loop; other site 883002888 ATP binding site [chemical binding]; other site 883002889 Q-loop/lid; other site 883002890 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 883002891 ABC transporter signature motif; other site 883002892 Walker B; other site 883002893 D-loop; other site 883002894 H-loop/switch region; other site 883002895 ribonuclease R; Region: RNase_R; TIGR02063 883002896 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 883002897 RNB domain; Region: RNB; pfam00773 883002898 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 883002899 RNA binding site [nucleotide binding]; other site 883002900 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 883002901 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 883002902 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 883002903 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883002904 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 883002905 DNA binding residues [nucleotide binding] 883002906 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 883002907 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883002908 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 883002909 putative [4Fe-4S] binding site [ion binding]; other site 883002910 putative molybdopterin cofactor binding site [chemical binding]; other site 883002911 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 883002912 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 883002913 molybdopterin cofactor binding site; other site 883002914 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883002915 4Fe-4S binding domain; Region: Fer4; cl02805 883002916 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 883002917 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 883002918 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 883002919 binding surface 883002920 TPR motif; other site 883002921 TPR repeat; Region: TPR_11; pfam13414 883002922 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 883002923 binding surface 883002924 TPR motif; other site 883002925 TPR repeat; Region: TPR_11; pfam13414 883002926 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 883002927 active site 883002928 catalytic site [active] 883002929 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 883002930 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 883002931 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 883002932 FAD binding pocket [chemical binding]; other site 883002933 FAD binding motif [chemical binding]; other site 883002934 phosphate binding motif [ion binding]; other site 883002935 beta-alpha-beta structure motif; other site 883002936 NAD binding pocket [chemical binding]; other site 883002937 Iron coordination center [ion binding]; other site 883002938 putative oxidoreductase; Provisional; Region: PRK12831 883002939 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 883002940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 883002941 Late competence development protein ComFB; Region: ComFB; pfam10719 883002942 histidinol-phosphatase; Provisional; Region: PRK07328 883002943 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 883002944 active site 883002945 dimer interface [polypeptide binding]; other site 883002946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883002947 Walker A/P-loop; other site 883002948 ATP binding site [chemical binding]; other site 883002949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 883002950 Q-loop/lid; other site 883002951 ABC transporter signature motif; other site 883002952 Walker B; other site 883002953 D-loop; other site 883002954 H-loop/switch region; other site 883002955 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 883002956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883002957 Walker A/P-loop; other site 883002958 ATP binding site [chemical binding]; other site 883002959 Q-loop/lid; other site 883002960 ABC transporter signature motif; other site 883002961 Walker B; other site 883002962 D-loop; other site 883002963 H-loop/switch region; other site 883002964 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 883002965 active site 883002966 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 883002967 4Fe-4S binding domain; Region: Fer4_5; pfam12801 883002968 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883002969 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 883002970 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 883002971 heat shock protein HtpX; Provisional; Region: PRK03982 883002972 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 883002973 CoenzymeA binding site [chemical binding]; other site 883002974 subunit interaction site [polypeptide binding]; other site 883002975 PHB binding site; other site 883002976 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883002977 HAMP domain; Region: HAMP; pfam00672 883002978 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002979 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883002980 dimer interface [polypeptide binding]; other site 883002981 putative CheW interface [polypeptide binding]; other site 883002982 cell division protein FtsZ; Validated; Region: PRK09330 883002983 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 883002984 nucleotide binding site [chemical binding]; other site 883002985 SulA interaction site; other site 883002986 cell division protein FtsA; Region: ftsA; TIGR01174 883002987 Cell division protein FtsA; Region: FtsA; smart00842 883002988 Cell division protein FtsA; Region: FtsA; pfam14450 883002989 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 883002990 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 883002991 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 883002992 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 883002993 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 883002994 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 883002995 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 883002996 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 883002997 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 883002998 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 883002999 active site 883003000 homodimer interface [polypeptide binding]; other site 883003001 cell division protein FtsW; Region: ftsW; TIGR02614 883003002 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 883003003 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 883003004 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 883003005 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 883003006 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 883003007 Mg++ binding site [ion binding]; other site 883003008 putative catalytic motif [active] 883003009 putative substrate binding site [chemical binding]; other site 883003010 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 883003011 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 883003012 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 883003013 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 883003014 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 883003015 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 883003016 PASTA domain of PBP2x-like proteins, first 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_1; cd06576 883003017 MraW methylase family; Region: Methyltransf_5; cl17771 883003018 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 883003019 MraZ protein; Region: MraZ; pfam02381 883003020 cell division protein MraZ; Reviewed; Region: PRK00326 883003021 MraZ protein; Region: MraZ; pfam02381 883003022 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 883003023 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 883003024 domain interfaces; other site 883003025 active site 883003026 Protein of unknown function (DUF512); Region: DUF512; pfam04459 883003027 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003028 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 883003029 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 883003030 HD domain; Region: HD_3; pfam13023 883003031 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 883003032 23S rRNA interface [nucleotide binding]; other site 883003033 L3 interface [polypeptide binding]; other site 883003034 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 883003035 shikimate kinase; Reviewed; Region: aroK; PRK00131 883003036 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 883003037 ADP binding site [chemical binding]; other site 883003038 magnesium binding site [ion binding]; other site 883003039 putative shikimate binding site; other site 883003040 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 883003041 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 883003042 Phosphoglycerate kinase; Region: PGK; pfam00162 883003043 substrate binding site [chemical binding]; other site 883003044 hinge regions; other site 883003045 ADP binding site [chemical binding]; other site 883003046 catalytic site [active] 883003047 transketolase; Reviewed; Region: PRK12753 883003048 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 883003049 TPP-binding site [chemical binding]; other site 883003050 dimer interface [polypeptide binding]; other site 883003051 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 883003052 PYR/PP interface [polypeptide binding]; other site 883003053 dimer interface [polypeptide binding]; other site 883003054 TPP binding site [chemical binding]; other site 883003055 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 883003056 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 883003057 substrate binding site [chemical binding]; other site 883003058 hexamer interface [polypeptide binding]; other site 883003059 metal binding site [ion binding]; metal-binding site 883003060 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 883003061 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 883003062 DNA binding residues [nucleotide binding] 883003063 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 883003064 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 883003065 putative tRNA-binding site [nucleotide binding]; other site 883003066 B3/4 domain; Region: B3_4; pfam03483 883003067 tRNA synthetase B5 domain; Region: B5; smart00874 883003068 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 883003069 dimer interface [polypeptide binding]; other site 883003070 motif 1; other site 883003071 motif 3; other site 883003072 motif 2; other site 883003073 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 883003074 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 883003075 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 883003076 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 883003077 dimer interface [polypeptide binding]; other site 883003078 motif 1; other site 883003079 active site 883003080 motif 2; other site 883003081 motif 3; other site 883003082 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 883003083 23S rRNA binding site [nucleotide binding]; other site 883003084 L21 binding site [polypeptide binding]; other site 883003085 L13 binding site [polypeptide binding]; other site 883003086 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 883003087 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 883003088 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 883003089 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 883003090 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 883003091 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 883003092 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 883003093 active site 883003094 dimer interface [polypeptide binding]; other site 883003095 motif 1; other site 883003096 motif 2; other site 883003097 motif 3; other site 883003098 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 883003099 anticodon binding site; other site 883003100 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 883003101 potassium uptake protein; Region: kup; TIGR00794 883003102 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 883003103 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 883003104 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 883003105 hybrid cluster protein; Provisional; Region: PRK05290 883003106 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 883003107 ACS interaction site; other site 883003108 CODH interaction site; other site 883003109 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 883003110 hybrid metal cluster; other site 883003111 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883003112 Ferredoxin [Energy production and conversion]; Region: COG1146 883003113 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 883003114 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883003115 putative active site [active] 883003116 metal binding site [ion binding]; metal-binding site 883003117 PAS domain S-box; Region: sensory_box; TIGR00229 883003118 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 883003119 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883003120 putative active site [active] 883003121 heme pocket [chemical binding]; other site 883003122 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 883003123 dimer interface [polypeptide binding]; other site 883003124 phosphorylation site [posttranslational modification] 883003125 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 883003126 ATP binding site [chemical binding]; other site 883003127 Mg2+ binding site [ion binding]; other site 883003128 G-X-G motif; other site 883003129 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 883003130 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 883003131 ligand binding site [chemical binding]; other site 883003132 flexible hinge region; other site 883003133 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 883003134 putative switch regulator; other site 883003135 non-specific DNA interactions [nucleotide binding]; other site 883003136 DNA binding site [nucleotide binding] 883003137 sequence specific DNA binding site [nucleotide binding]; other site 883003138 putative cAMP binding site [chemical binding]; other site 883003139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003140 Zn2+ binding site [ion binding]; other site 883003141 Mg2+ binding site [ion binding]; other site 883003142 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003143 Zn2+ binding site [ion binding]; other site 883003144 Mg2+ binding site [ion binding]; other site 883003145 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 883003146 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 883003147 HIGH motif; other site 883003148 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 883003149 active site 883003150 KMSKS motif; other site 883003151 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 883003152 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 883003153 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 883003154 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 883003155 Biotin operon repressor [Transcription]; Region: BirA; COG1654 883003156 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 883003157 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 883003158 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 883003159 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 883003160 biotin synthase; Region: bioB; TIGR00433 883003161 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 883003162 FeS/SAM binding site; other site 883003163 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 883003164 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 883003165 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 883003166 inhibitor-cofactor binding pocket; inhibition site 883003167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883003168 catalytic residue [active] 883003169 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 883003170 active site 1 [active] 883003171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883003172 active site 883003173 Phosphopantetheine attachment site; Region: PP-binding; cl09936 883003174 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 883003175 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 883003176 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 883003177 active site 883003178 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 883003179 active site 1 [active] 883003180 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 883003181 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883003182 catalytic residue [active] 883003183 AAA domain; Region: AAA_26; pfam13500 883003184 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 883003185 diaminopimelate decarboxylase; Region: lysA; TIGR01048 883003186 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 883003187 active site 883003188 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883003189 substrate binding site [chemical binding]; other site 883003190 catalytic residues [active] 883003191 dimer interface [polypeptide binding]; other site 883003192 Predicted transcriptional regulators [Transcription]; Region: COG1378 883003193 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 883003194 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 883003195 C-terminal domain interface [polypeptide binding]; other site 883003196 sugar binding site [chemical binding]; other site 883003197 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 883003198 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 883003199 metal binding site [ion binding]; metal-binding site 883003200 dimer interface [polypeptide binding]; other site 883003201 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 883003202 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 883003203 Cache domain; Region: Cache_1; pfam02743 883003204 HAMP domain; Region: HAMP; pfam00672 883003205 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883003206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883003207 metal binding site [ion binding]; metal-binding site 883003208 active site 883003209 I-site; other site 883003210 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 883003211 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 883003212 G1 box; other site 883003213 GTP/Mg2+ binding site [chemical binding]; other site 883003214 Switch I region; other site 883003215 G2 box; other site 883003216 G3 box; other site 883003217 Switch II region; other site 883003218 G4 box; other site 883003219 G5 box; other site 883003220 Nucleoside recognition; Region: Gate; pfam07670 883003221 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 883003222 Nucleoside recognition; Region: Gate; pfam07670 883003223 FeoA domain; Region: FeoA; pfam04023 883003224 FeoA domain; Region: FeoA; pfam04023 883003225 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 883003226 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 883003227 metal binding site [ion binding]; metal-binding site 883003228 dimer interface [polypeptide binding]; other site 883003229 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 883003230 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 883003231 Walker A/P-loop; other site 883003232 ATP binding site [chemical binding]; other site 883003233 Q-loop/lid; other site 883003234 ABC transporter signature motif; other site 883003235 Walker B; other site 883003236 D-loop; other site 883003237 H-loop/switch region; other site 883003238 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883003239 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883003240 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 883003241 active site 883003242 phosphorylation site [posttranslational modification] 883003243 intermolecular recognition site; other site 883003244 dimerization interface [polypeptide binding]; other site 883003245 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 883003246 DNA binding residues [nucleotide binding] 883003247 dimerization interface [polypeptide binding]; other site 883003248 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883003249 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 883003250 DNA binding residues [nucleotide binding] 883003251 dimerization interface [polypeptide binding]; other site 883003252 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 883003253 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 883003254 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 883003255 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 883003256 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 883003257 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 883003258 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 883003259 Walker A motif; other site 883003260 ATP binding site [chemical binding]; other site 883003261 Walker B motif; other site 883003262 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 883003263 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 883003264 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 883003265 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 883003266 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 883003267 Walker A motif; other site 883003268 ATP binding site [chemical binding]; other site 883003269 Walker B motif; other site 883003270 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 883003271 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 883003272 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 883003273 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 883003274 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 883003275 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 883003276 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 883003277 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883003278 catalytic residue [active] 883003279 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 883003280 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 883003281 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 883003282 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 883003283 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 883003284 Walker A motif; other site 883003285 ATP binding site [chemical binding]; other site 883003286 Walker B motif; other site 883003287 AAA ATPase domain; Region: AAA_16; pfam13191 883003288 Walker A motif; other site 883003289 ATP binding site [chemical binding]; other site 883003290 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 883003291 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 883003292 putative active site [active] 883003293 PhoH-like protein; Region: PhoH; pfam02562 883003294 Transglycosylase; Region: Transgly; pfam00912 883003295 Methyltransferase domain; Region: Methyltransf_23; pfam13489 883003296 Methyltransferase domain; Region: Methyltransf_12; pfam08242 883003297 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 883003298 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 883003299 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 883003300 dimer interface [polypeptide binding]; other site 883003301 conserved gate region; other site 883003302 putative PBP binding loops; other site 883003303 ABC-ATPase subunit interface; other site 883003304 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 883003305 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 883003306 Walker A/P-loop; other site 883003307 ATP binding site [chemical binding]; other site 883003308 Q-loop/lid; other site 883003309 ABC transporter signature motif; other site 883003310 Walker B; other site 883003311 D-loop; other site 883003312 H-loop/switch region; other site 883003313 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 883003314 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 883003315 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 883003316 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 883003317 active site residue [active] 883003318 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 883003319 Sel1-like repeats; Region: SEL1; smart00671 883003320 Sel1-like repeats; Region: SEL1; smart00671 883003321 Sel1-like repeats; Region: SEL1; smart00671 883003322 Sel1-like repeats; Region: SEL1; smart00671 883003323 Sel1-like repeats; Region: SEL1; smart00671 883003324 H+ Antiporter protein; Region: 2A0121; TIGR00900 883003325 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 883003326 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 883003327 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 883003328 active site 883003329 dimerization interface [polypeptide binding]; other site 883003330 TPR repeat; Region: TPR_11; pfam13414 883003331 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 883003332 binding surface 883003333 TPR motif; other site 883003334 TPR repeat; Region: TPR_11; pfam13414 883003335 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 883003336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003337 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 883003338 ATP binding site [chemical binding]; other site 883003339 Mg2+ binding site [ion binding]; other site 883003340 G-X-G motif; other site 883003341 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883003342 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 883003343 active site 883003344 phosphorylation site [posttranslational modification] 883003345 intermolecular recognition site; other site 883003346 dimerization interface [polypeptide binding]; other site 883003347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883003348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883003349 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 883003350 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 883003351 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 883003352 Cl binding site [ion binding]; other site 883003353 oligomer interface [polypeptide binding]; other site 883003354 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 883003355 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003357 dimer interface [polypeptide binding]; other site 883003358 putative CheW interface [polypeptide binding]; other site 883003359 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 883003360 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883003361 ABC transporter; Region: ABC_tran_2; pfam12848 883003362 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883003363 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 883003364 Uncharacterized conserved protein [Function unknown]; Region: COG2461 883003365 Family of unknown function (DUF438); Region: DUF438; pfam04282 883003366 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 883003367 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 883003368 PAS fold; Region: PAS_4; pfam08448 883003369 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 883003370 putative active site [active] 883003371 heme pocket [chemical binding]; other site 883003372 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003374 dimer interface [polypeptide binding]; other site 883003375 putative CheW interface [polypeptide binding]; other site 883003376 Phage Tail Collar Domain; Region: Collar; pfam07484 883003377 hypothetical protein; Region: PHA00661 883003378 hypothetical protein; Region: PHA00662 883003379 hypothetical protein; Region: PHA00670 883003380 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 883003381 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 883003382 Terminase small subunit; Region: Terminase_2; pfam03592 883003383 TPR repeat; Region: TPR_11; pfam13414 883003384 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 883003385 binding surface 883003386 TPR motif; other site 883003387 TPR repeat; Region: TPR_11; pfam13414 883003388 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883003389 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 883003390 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883003391 ligand binding site [chemical binding]; other site 883003392 flagellar motor protein MotA; Validated; Region: PRK09110 883003393 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883003394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003395 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 883003396 putative active site [active] 883003397 heme pocket [chemical binding]; other site 883003398 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 883003399 dimer interface [polypeptide binding]; other site 883003400 phosphorylation site [posttranslational modification] 883003401 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 883003402 ATP binding site [chemical binding]; other site 883003403 G-X-G motif; other site 883003404 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883003405 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 883003406 putative active site [active] 883003407 heme pocket [chemical binding]; other site 883003408 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 883003409 dimer interface [polypeptide binding]; other site 883003410 phosphorylation site [posttranslational modification] 883003411 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 883003412 ATP binding site [chemical binding]; other site 883003413 Mg2+ binding site [ion binding]; other site 883003414 G-X-G motif; other site 883003415 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 883003416 generic binding surface II; other site 883003417 generic binding surface I; other site 883003418 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 883003419 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 883003420 sequence-specific DNA binding site [nucleotide binding]; other site 883003421 salt bridge; other site 883003422 Predicted transcriptional regulator [Transcription]; Region: COG2932 883003423 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 883003424 Catalytic site [active] 883003425 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883003426 HAMP domain; Region: HAMP; pfam00672 883003427 GAF domain; Region: GAF_3; pfam13492 883003428 PAS domain S-box; Region: sensory_box; TIGR00229 883003429 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 883003430 putative active site [active] 883003431 heme pocket [chemical binding]; other site 883003432 PAS domain S-box; Region: sensory_box; TIGR00229 883003433 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 883003434 putative active site [active] 883003435 heme pocket [chemical binding]; other site 883003436 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 883003437 dimer interface [polypeptide binding]; other site 883003438 phosphorylation site [posttranslational modification] 883003439 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 883003440 ATP binding site [chemical binding]; other site 883003441 Mg2+ binding site [ion binding]; other site 883003442 G-X-G motif; other site 883003443 Response regulator receiver domain; Region: Response_reg; pfam00072 883003444 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 883003445 active site 883003446 phosphorylation site [posttranslational modification] 883003447 intermolecular recognition site; other site 883003448 dimerization interface [polypeptide binding]; other site 883003449 Response regulator receiver domain; Region: Response_reg; pfam00072 883003450 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 883003451 active site 883003452 phosphorylation site [posttranslational modification] 883003453 intermolecular recognition site; other site 883003454 dimerization interface [polypeptide binding]; other site 883003455 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; cl00086 883003456 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 883003457 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 883003458 active site 883003459 phosphorylation site [posttranslational modification] 883003460 intermolecular recognition site; other site 883003461 dimerization interface [polypeptide binding]; other site 883003462 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003463 Zn2+ binding site [ion binding]; other site 883003464 Mg2+ binding site [ion binding]; other site 883003465 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 883003466 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 883003467 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 883003468 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 883003469 putative substrate translocation pore; other site 883003470 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 883003471 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 883003472 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883003473 HlyD family secretion protein; Region: HlyD_3; pfam13437 883003474 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 883003475 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003476 substrate binding pocket [chemical binding]; other site 883003477 membrane-bound complex binding site; other site 883003478 hinge residues; other site 883003479 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 883003480 Cache domain; Region: Cache_1; pfam02743 883003481 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883003482 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 883003483 dimerization interface [polypeptide binding]; other site 883003484 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 883003485 putative active site [active] 883003486 heme pocket [chemical binding]; other site 883003487 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 883003488 PAS domain; Region: PAS_9; pfam13426 883003489 putative active site [active] 883003490 heme pocket [chemical binding]; other site 883003491 TPR repeat; Region: TPR_11; pfam13414 883003492 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 883003493 binding surface 883003494 TPR motif; other site 883003495 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 883003496 putative active site [active] 883003497 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 883003498 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 883003499 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 883003500 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 883003501 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 883003502 TSCPD domain; Region: TSCPD; cl14834 883003503 Nitrate and nitrite sensing; Region: NIT; pfam08376 883003504 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 883003505 dimerization interface [polypeptide binding]; other site 883003506 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003508 dimer interface [polypeptide binding]; other site 883003509 putative CheW interface [polypeptide binding]; other site 883003510 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 883003511 CoenzymeA binding site [chemical binding]; other site 883003512 subunit interaction site [polypeptide binding]; other site 883003513 PHB binding site; other site 883003514 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 883003515 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 883003516 heat shock protein 90; Provisional; Region: PRK05218 883003517 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 883003518 Mg2+ binding site [ion binding]; other site 883003519 G-X-G motif; other site 883003520 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 883003521 dimerization interface [polypeptide binding]; other site 883003522 PAS domain; Region: PAS_9; pfam13426 883003523 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003524 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003525 dimer interface [polypeptide binding]; other site 883003526 putative CheW interface [polypeptide binding]; other site 883003527 putative cation:proton antiport protein; Provisional; Region: PRK10669 883003528 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 883003529 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883003530 TrkA-N domain; Region: TrkA_N; pfam02254 883003531 TrkA-C domain; Region: TrkA_C; pfam02080 883003532 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 883003533 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 883003534 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 883003535 active site 883003536 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 883003537 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 883003538 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 883003539 Ligand Binding Site [chemical binding]; other site 883003540 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 883003541 hydroxyglutarate oxidase; Provisional; Region: PRK11728 883003542 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 883003543 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 883003544 catalytic loop [active] 883003545 iron binding site [ion binding]; other site 883003546 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 883003547 putative deacylase active site [active] 883003548 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883003549 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 883003550 active site 883003551 phosphorylation site [posttranslational modification] 883003552 intermolecular recognition site; other site 883003553 dimerization interface [polypeptide binding]; other site 883003554 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 883003555 DNA binding residues [nucleotide binding] 883003556 dimerization interface [polypeptide binding]; other site 883003557 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883003558 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 883003559 active site 883003560 phosphorylation site [posttranslational modification] 883003561 intermolecular recognition site; other site 883003562 dimerization interface [polypeptide binding]; other site 883003563 Response regulator receiver domain; Region: Response_reg; pfam00072 883003564 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 883003565 active site 883003566 phosphorylation site [posttranslational modification] 883003567 intermolecular recognition site; other site 883003568 dimerization interface [polypeptide binding]; other site 883003569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003570 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 883003571 dimer interface [polypeptide binding]; other site 883003572 phosphorylation site [posttranslational modification] 883003573 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 883003574 ATP binding site [chemical binding]; other site 883003575 Mg2+ binding site [ion binding]; other site 883003576 G-X-G motif; other site 883003577 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 883003578 active site 883003579 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 883003580 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 883003581 DHH family; Region: DHH; pfam01368 883003582 HDOD domain; Region: HDOD; pfam08668 883003583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003584 Zn2+ binding site [ion binding]; other site 883003585 Mg2+ binding site [ion binding]; other site 883003586 Tetratricopeptide repeat; Region: TPR_12; pfam13424 883003587 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 883003588 binding surface 883003589 TPR motif; other site 883003590 TPR repeat; Region: TPR_11; pfam13414 883003591 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 883003592 active site 883003593 dimer interface [polypeptide binding]; other site 883003594 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 883003595 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 883003596 catalytic site [active] 883003597 G-X2-G-X-G-K; other site 883003598 hypothetical protein; Provisional; Region: PRK04323 883003599 hypothetical protein; Provisional; Region: PRK11820 883003600 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 883003601 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 883003602 PAS fold; Region: PAS_4; pfam08448 883003603 PAS fold; Region: PAS_4; pfam08448 883003604 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 883003605 putative active site [active] 883003606 heme pocket [chemical binding]; other site 883003607 PAS domain; Region: PAS_9; pfam13426 883003608 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 883003609 putative active site [active] 883003610 heme pocket [chemical binding]; other site 883003611 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 883003612 dimer interface [polypeptide binding]; other site 883003613 phosphorylation site [posttranslational modification] 883003614 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 883003615 ATP binding site [chemical binding]; other site 883003616 Mg2+ binding site [ion binding]; other site 883003617 G-X-G motif; other site 883003618 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 883003619 Response regulator receiver domain; Region: Response_reg; pfam00072 883003620 active site 883003621 phosphorylation site [posttranslational modification] 883003622 intermolecular recognition site; other site 883003623 dimerization interface [polypeptide binding]; other site 883003624 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883003625 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 883003626 flavodoxin, short chain; Region: flav_short; TIGR01753 883003627 L-lactate permease; Region: Lactate_perm; cl00701 883003628 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 883003629 Ion channel; Region: Ion_trans_2; pfam07885 883003630 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883003631 TrkA-N domain; Region: TrkA_N; pfam02254 883003632 TrkA-C domain; Region: TrkA_C; pfam02080 883003633 TrkA-N domain; Region: TrkA_N; pfam02254 883003634 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883003635 TrkA-C domain; Region: TrkA_C; pfam02080 883003636 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 883003637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 883003638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883003639 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 883003640 dimerization interface [polypeptide binding]; other site 883003641 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 883003642 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883003643 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 883003644 acyl-activating enzyme (AAE) consensus motif; other site 883003645 AMP binding site [chemical binding]; other site 883003646 active site 883003647 CoA binding site [chemical binding]; other site 883003648 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 883003649 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 883003650 Cache domain; Region: Cache_1; pfam02743 883003651 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 883003652 dimerization interface [polypeptide binding]; other site 883003653 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 883003654 PAS domain; Region: PAS_9; pfam13426 883003655 putative active site [active] 883003656 heme pocket [chemical binding]; other site 883003657 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003659 dimer interface [polypeptide binding]; other site 883003660 putative CheW interface [polypeptide binding]; other site 883003661 PAS fold; Region: PAS_4; pfam08448 883003662 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 883003663 putative active site [active] 883003664 heme pocket [chemical binding]; other site 883003665 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003666 Zn2+ binding site [ion binding]; other site 883003667 Mg2+ binding site [ion binding]; other site 883003668 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 883003669 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 883003670 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883003671 HlyD family secretion protein; Region: HlyD_3; pfam13437 883003672 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 883003673 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 883003674 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 883003675 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 883003676 Walker A/P-loop; other site 883003677 ATP binding site [chemical binding]; other site 883003678 Q-loop/lid; other site 883003679 ABC transporter signature motif; other site 883003680 Walker B; other site 883003681 D-loop; other site 883003682 H-loop/switch region; other site 883003683 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 883003684 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883003685 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 883003686 Walker A/P-loop; other site 883003687 ATP binding site [chemical binding]; other site 883003688 Q-loop/lid; other site 883003689 ABC transporter signature motif; other site 883003690 Walker B; other site 883003691 D-loop; other site 883003692 H-loop/switch region; other site 883003693 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883003694 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 883003695 Walker A/P-loop; other site 883003696 ATP binding site [chemical binding]; other site 883003697 Q-loop/lid; other site 883003698 ABC transporter signature motif; other site 883003699 Walker B; other site 883003700 D-loop; other site 883003701 H-loop/switch region; other site 883003702 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 883003703 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 883003704 TM-ABC transporter signature motif; other site 883003705 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 883003706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 883003707 TM-ABC transporter signature motif; other site 883003708 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883003709 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 883003710 putative ligand binding site [chemical binding]; other site 883003711 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 883003712 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 883003713 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 883003714 NADP binding site [chemical binding]; other site 883003715 dimer interface [polypeptide binding]; other site 883003716 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 883003717 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 883003718 active site residue [active] 883003719 CbiD; Region: CbiD; cl00828 883003720 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 883003721 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 883003722 active site 883003723 SAM binding site [chemical binding]; other site 883003724 putative homodimer interface [polypeptide binding]; other site 883003725 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 883003726 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 883003727 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 883003728 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003729 substrate binding pocket [chemical binding]; other site 883003730 membrane-bound complex binding site; other site 883003731 hinge residues; other site 883003732 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 883003733 active site 883003734 SAM binding site [chemical binding]; other site 883003735 homodimer interface [polypeptide binding]; other site 883003736 multicopper oxidase; Provisional; Region: PRK10965 883003737 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 883003738 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 883003739 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003740 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 883003741 substrate binding pocket [chemical binding]; other site 883003742 membrane-bound complex binding site; other site 883003743 hinge residues; other site 883003744 Soluble P-type ATPase [General function prediction only]; Region: COG4087 883003745 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 883003746 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 883003747 Substrate binding site; other site 883003748 Mg++ binding site; other site 883003749 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 883003750 active site 883003751 substrate binding site [chemical binding]; other site 883003752 CoA binding site [chemical binding]; other site 883003753 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 883003754 Cell division protein ZapA; Region: ZapA; pfam05164 883003755 phosphodiesterase; Provisional; Region: PRK12704 883003756 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 883003757 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003758 Zn2+ binding site [ion binding]; other site 883003759 Mg2+ binding site [ion binding]; other site 883003760 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 883003761 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003762 substrate binding pocket [chemical binding]; other site 883003763 membrane-bound complex binding site; other site 883003764 hinge residues; other site 883003765 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 883003766 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 883003767 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 883003768 FeS/SAM binding site; other site 883003769 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 883003770 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 883003771 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 883003772 EamA-like transporter family; Region: EamA; pfam00892 883003773 GrpE; Region: GrpE; pfam01025 883003774 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 883003775 dimer interface [polypeptide binding]; other site 883003776 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 883003777 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 883003778 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 883003779 DsrC like protein; Region: DsrC; pfam04358 883003780 hypothetical protein; Provisional; Region: PRK11622 883003781 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 883003782 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 883003783 Uncharacterized conserved protein [Function unknown]; Region: COG1284 883003784 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 883003785 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 883003786 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 883003787 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883003788 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 883003789 active site 883003790 substrate binding site [chemical binding]; other site 883003791 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 883003792 FMN binding site [chemical binding]; other site 883003793 putative catalytic residues [active] 883003794 Transcriptional regulators [Transcription]; Region: FadR; COG2186 883003795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883003796 DNA-binding site [nucleotide binding]; DNA binding site 883003797 FCD domain; Region: FCD; pfam07729 883003798 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 883003799 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 883003800 dimerization interface [polypeptide binding]; other site 883003801 putative DNA binding site [nucleotide binding]; other site 883003802 putative Zn2+ binding site [ion binding]; other site 883003803 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 883003804 putative CheA interaction surface; other site 883003805 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883003806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003807 dimer interface [polypeptide binding]; other site 883003808 putative CheW interface [polypeptide binding]; other site 883003809 Response regulator receiver domain; Region: Response_reg; pfam00072 883003810 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 883003811 active site 883003812 dimerization interface [polypeptide binding]; other site 883003813 PAS domain; Region: PAS_9; pfam13426 883003814 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 883003815 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883003816 Walker A motif; other site 883003817 ATP binding site [chemical binding]; other site 883003818 Walker B motif; other site 883003819 arginine finger; other site 883003820 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883003821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883003823 dimer interface [polypeptide binding]; other site 883003824 putative CheW interface [polypeptide binding]; other site 883003825 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 883003826 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 883003827 Putative Fe-S cluster; Region: FeS; cl17515 883003828 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883003829 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883003830 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 883003831 [4Fe-4S] binding site [ion binding]; other site 883003832 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 883003833 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 883003834 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 883003835 molybdopterin cofactor binding site; other site 883003836 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 883003837 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 883003838 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 883003839 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 883003840 catalytic residues [active] 883003841 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883003842 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 883003843 putative ligand binding site [chemical binding]; other site 883003844 HAMP domain; Region: HAMP; pfam00672 883003845 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883003846 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 883003847 putative active site [active] 883003848 heme pocket [chemical binding]; other site 883003849 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 883003850 dimer interface [polypeptide binding]; other site 883003851 phosphorylation site [posttranslational modification] 883003852 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 883003853 ATP binding site [chemical binding]; other site 883003854 Mg2+ binding site [ion binding]; other site 883003855 G-X-G motif; other site 883003856 Response regulator receiver domain; Region: Response_reg; pfam00072 883003857 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 883003858 active site 883003859 phosphorylation site [posttranslational modification] 883003860 intermolecular recognition site; other site 883003861 dimerization interface [polypeptide binding]; other site 883003862 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 883003863 anti sigma factor interaction site; other site 883003864 regulatory phosphorylation site [posttranslational modification]; other site 883003865 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 883003866 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 883003867 active site 883003868 phosphorylation site [posttranslational modification] 883003869 intermolecular recognition site; other site 883003870 dimerization interface [polypeptide binding]; other site 883003871 LytTr DNA-binding domain; Region: LytTR; smart00850 883003872 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 883003873 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 883003874 GAF domain; Region: GAF_3; pfam13492 883003875 Histidine kinase; Region: His_kinase; pfam06580 883003876 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 883003877 ATP binding site [chemical binding]; other site 883003878 Mg2+ binding site [ion binding]; other site 883003879 G-X-G motif; other site 883003880 Carbon starvation protein CstA; Region: CstA; pfam02554 883003881 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 883003882 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 883003883 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 883003884 Carbon starvation protein CstA; Region: CstA; pfam02554 883003885 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 883003886 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 883003887 Carbon starvation protein CstA; Region: CstA; pfam02554 883003888 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 883003889 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 883003890 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 883003891 FeS/SAM binding site; other site 883003892 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 883003893 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 883003894 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 883003895 GTP binding site; other site 883003896 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 883003897 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 883003898 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 883003899 methionine sulfoxide reductase B; Provisional; Region: PRK00222 883003900 SelR domain; Region: SelR; pfam01641 883003901 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 883003902 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 883003903 CreA protein; Region: CreA; pfam05981 883003904 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 883003905 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 883003906 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 883003907 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883003908 metal binding site 2 [ion binding]; metal-binding site 883003909 putative DNA binding helix; other site 883003910 metal binding site 1 [ion binding]; metal-binding site 883003911 dimer interface [polypeptide binding]; other site 883003912 structural Zn2+ binding site [ion binding]; other site 883003913 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 883003914 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 883003915 tetramer interface [polypeptide binding]; other site 883003916 heme binding pocket [chemical binding]; other site 883003917 NADPH binding site [chemical binding]; other site 883003918 Cache domain; Region: Cache_1; pfam02743 883003919 PAS domain S-box; Region: sensory_box; TIGR00229 883003920 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 883003921 ATP binding site [chemical binding]; other site 883003922 G-X-G motif; other site 883003923 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883003924 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 883003925 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883003926 molybdopterin cofactor binding site; other site 883003927 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 883003928 molybdopterin cofactor binding site; other site 883003929 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 883003930 catalytic triad [active] 883003931 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 883003932 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 883003933 ATP-grasp domain; Region: ATP-grasp_4; cl17255 883003934 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 883003935 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 883003936 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 883003937 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 883003938 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883003939 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883003940 metal binding site [ion binding]; metal-binding site 883003941 active site 883003942 I-site; other site 883003943 Cupin domain; Region: Cupin_2; pfam07883 883003944 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883003945 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 883003946 PAS domain; Region: PAS; smart00091 883003947 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 883003948 dimer interface [polypeptide binding]; other site 883003949 phosphorylation site [posttranslational modification] 883003950 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 883003951 ATP binding site [chemical binding]; other site 883003952 Mg2+ binding site [ion binding]; other site 883003953 G-X-G motif; other site 883003954 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883003955 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 883003956 active site 883003957 phosphorylation site [posttranslational modification] 883003958 intermolecular recognition site; other site 883003959 dimerization interface [polypeptide binding]; other site 883003960 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 883003961 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 883003962 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 883003963 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883003964 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 883003965 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883003966 PBP superfamily domain; Region: PBP_like; cl17867 883003967 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003968 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 883003969 dimerization interface [polypeptide binding]; other site 883003970 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 883003971 dimer interface [polypeptide binding]; other site 883003972 phosphorylation site [posttranslational modification] 883003973 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 883003974 ATP binding site [chemical binding]; other site 883003975 Mg2+ binding site [ion binding]; other site 883003976 G-X-G motif; other site 883003977 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883003978 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 883003979 active site 883003980 phosphorylation site [posttranslational modification] 883003981 intermolecular recognition site; other site 883003982 dimerization interface [polypeptide binding]; other site 883003983 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 883003984 Walker A motif; other site 883003985 ATP binding site [chemical binding]; other site 883003986 Walker B motif; other site 883003987 arginine finger; other site 883003988 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883003989 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 883003990 Predicted transcriptional regulator [Transcription]; Region: COG2932 883003991 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 883003992 Catalytic site [active] 883003993 HWE histidine kinase; Region: HWE_HK; cl06527 883003994 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 883003995 Integrase core domain; Region: rve; pfam00665 883003996 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 883003997 AAA domain; Region: AAA_22; pfam13401 883003998 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 883003999 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 883004000 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 883004001 Helix-turn-helix domain; Region: HTH_17; pfam12728 883004002 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 883004003 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 883004004 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 883004005 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883004006 catalytic residue [active] 883004007 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 883004008 Terminase-like family; Region: Terminase_6; pfam03237 883004009 Protein of unknown function (DUF935); Region: DUF935; pfam06074 883004010 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 883004011 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 883004012 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 883004013 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 883004014 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 883004015 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 883004016 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 883004017 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 883004018 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 883004019 Baseplate J-like protein; Region: Baseplate_J; pfam04865 883004020 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 883004021 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 883004022 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 883004023 DNA methylase; Region: N6_N4_Mtase; cl17433 883004024 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 883004025 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 883004026 selenocysteine synthase; Provisional; Region: PRK04311 883004027 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 883004028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883004029 catalytic residue [active] 883004030 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 883004031 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883004032 NAD binding site [chemical binding]; other site 883004033 putative substrate binding site 2 [chemical binding]; other site 883004034 putative substrate binding site 1 [chemical binding]; other site 883004035 active site 883004036 Methyltransferase domain; Region: Methyltransf_24; pfam13578 883004037 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 883004038 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 883004039 oligomer interface [polypeptide binding]; other site 883004040 putative active site [active] 883004041 metal binding site [ion binding]; metal-binding site 883004042 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883004043 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 883004044 putative active site [active] 883004045 metal binding site [ion binding]; metal-binding site 883004046 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 883004047 EamA-like transporter family; Region: EamA; pfam00892 883004048 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 883004049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883004050 Walker A/P-loop; other site 883004051 ATP binding site [chemical binding]; other site 883004052 Q-loop/lid; other site 883004053 ABC transporter signature motif; other site 883004054 Walker B; other site 883004055 D-loop; other site 883004056 H-loop/switch region; other site 883004057 BioY family; Region: BioY; pfam02632 883004058 nickel responsive regulator; Provisional; Region: PRK04460 883004059 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 883004060 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 883004061 putative GTP cyclohydrolase; Provisional; Region: PRK13674 883004062 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883004063 Predicted permeases [General function prediction only]; Region: COG0679 883004064 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883004065 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 883004066 Walker A motif; other site 883004067 ATP binding site [chemical binding]; other site 883004068 Walker B motif; other site 883004069 arginine finger; other site 883004070 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883004071 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883004072 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 883004073 binding surface 883004074 TPR motif; other site 883004075 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 883004076 putative ligand binding pocket/active site [active] 883004077 putative metal binding site [ion binding]; other site 883004078 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 883004079 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 883004080 metal-binding site [ion binding] 883004081 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 883004082 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 883004083 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 883004084 FeS/SAM binding site; other site 883004085 Bifunctional nuclease; Region: DNase-RNase; pfam02577 883004086 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 883004087 active site 883004088 hypothetical protein; Provisional; Region: PRK06361 883004089 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 883004090 TPR motif; other site 883004091 binding surface 883004092 hypothetical protein; Provisional; Region: PRK05255 883004093 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 883004094 UbiA prenyltransferase family; Region: UbiA; pfam01040 883004095 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004096 Zn2+ binding site [ion binding]; other site 883004097 Mg2+ binding site [ion binding]; other site 883004098 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 883004099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004100 Zn2+ binding site [ion binding]; other site 883004101 Mg2+ binding site [ion binding]; other site 883004102 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 883004103 MPT binding site; other site 883004104 trimer interface [polypeptide binding]; other site 883004105 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883004106 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883004107 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 883004108 Walker A/P-loop; other site 883004109 ATP binding site [chemical binding]; other site 883004110 Q-loop/lid; other site 883004111 ABC transporter signature motif; other site 883004112 Walker B; other site 883004113 D-loop; other site 883004114 H-loop/switch region; other site 883004115 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883004116 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 883004117 dimer interface [polypeptide binding]; other site 883004118 conserved gate region; other site 883004119 putative PBP binding loops; other site 883004120 ABC-ATPase subunit interface; other site 883004121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883004122 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 883004123 substrate binding pocket [chemical binding]; other site 883004124 membrane-bound complex binding site; other site 883004125 hinge residues; other site 883004126 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 883004127 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 883004128 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 883004129 NAD(P) binding pocket [chemical binding]; other site 883004130 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 883004131 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 883004132 OstA-like protein; Region: OstA; cl00844 883004133 Organic solvent tolerance protein; Region: OstA_C; pfam04453 883004134 alanine racemase; Reviewed; Region: alr; PRK00053 883004135 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 883004136 active site 883004137 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883004138 dimer interface [polypeptide binding]; other site 883004139 substrate binding site [chemical binding]; other site 883004140 catalytic residues [active] 883004141 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 883004142 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 883004143 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 883004144 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 883004145 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 883004146 replicative DNA helicase; Region: DnaB; TIGR00665 883004147 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 883004148 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 883004149 Walker A motif; other site 883004150 ATP binding site [chemical binding]; other site 883004151 Walker B motif; other site 883004152 DNA binding loops [nucleotide binding] 883004153 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 883004154 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 883004155 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 883004156 type III secretion system chaperone SseA; Provisional; Region: PRK15365 883004157 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 883004158 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 883004159 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 883004160 active site 883004161 HIGH motif; other site 883004162 dimer interface [polypeptide binding]; other site 883004163 KMSKS motif; other site 883004164 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 883004165 RNA binding surface [nucleotide binding]; other site 883004166 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 883004167 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 883004168 putative active site [active] 883004169 metal binding site [ion binding]; metal-binding site 883004170 homodimer binding site [polypeptide binding]; other site 883004171 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 883004172 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 883004173 dimer interface [polypeptide binding]; other site 883004174 putative functional site; other site 883004175 putative MPT binding site; other site 883004176 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 883004177 EamA-like transporter family; Region: EamA; pfam00892 883004178 EamA-like transporter family; Region: EamA; pfam00892 883004179 Response regulator receiver domain; Region: Response_reg; pfam00072 883004180 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 883004181 active site 883004182 phosphorylation site [posttranslational modification] 883004183 intermolecular recognition site; other site 883004184 dimerization interface [polypeptide binding]; other site 883004185 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 883004186 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883004187 Walker A motif; other site 883004188 ATP binding site [chemical binding]; other site 883004189 Walker B motif; other site 883004190 arginine finger; other site 883004191 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883004192 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 883004193 dimer interface [polypeptide binding]; other site 883004194 phosphorylation site [posttranslational modification] 883004195 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 883004196 ATP binding site [chemical binding]; other site 883004197 Mg2+ binding site [ion binding]; other site 883004198 G-X-G motif; other site 883004199 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883004200 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883004201 metal binding site 2 [ion binding]; metal-binding site 883004202 putative DNA binding helix; other site 883004203 metal binding site 1 [ion binding]; metal-binding site 883004204 dimer interface [polypeptide binding]; other site 883004205 structural Zn2+ binding site [ion binding]; other site 883004206 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 883004207 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 883004208 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 883004209 Peptidase M16C associated; Region: M16C_assoc; pfam08367 883004210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883004211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004212 metal binding site [ion binding]; metal-binding site 883004213 active site 883004214 I-site; other site 883004215 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 883004216 DNA binding domain, excisionase family; Region: excise; TIGR01764 883004217 HAMP domain; Region: HAMP; pfam00672 883004218 dimerization interface [polypeptide binding]; other site 883004219 PAS fold; Region: PAS_4; pfam08448 883004220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883004221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883004222 dimer interface [polypeptide binding]; other site 883004223 putative CheW interface [polypeptide binding]; other site 883004224 Response regulator receiver domain; Region: Response_reg; pfam00072 883004225 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 883004226 active site 883004227 phosphorylation site [posttranslational modification] 883004228 intermolecular recognition site; other site 883004229 dimerization interface [polypeptide binding]; other site 883004230 PAS domain S-box; Region: sensory_box; TIGR00229 883004231 PAS domain; Region: PAS_8; pfam13188 883004232 PAS fold; Region: PAS_4; pfam08448 883004233 PAS domain; Region: PAS; smart00091 883004234 PAS domain; Region: PAS_9; pfam13426 883004235 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883004236 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 883004237 ATP binding site [chemical binding]; other site 883004238 Mg2+ binding site [ion binding]; other site 883004239 G-X-G motif; other site 883004240 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 883004241 dimer interface [polypeptide binding]; other site 883004242 substrate binding site [chemical binding]; other site 883004243 ATP binding site [chemical binding]; other site 883004244 gamma-glutamyl kinase; Provisional; Region: PRK05429 883004245 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 883004246 nucleotide binding site [chemical binding]; other site 883004247 homotetrameric interface [polypeptide binding]; other site 883004248 putative phosphate binding site [ion binding]; other site 883004249 putative allosteric binding site; other site 883004250 PUA domain; Region: PUA; pfam01472 883004251 GTPase CgtA; Reviewed; Region: obgE; PRK12299 883004252 GTP1/OBG; Region: GTP1_OBG; pfam01018 883004253 Obg GTPase; Region: Obg; cd01898 883004254 G1 box; other site 883004255 GTP/Mg2+ binding site [chemical binding]; other site 883004256 Switch I region; other site 883004257 G2 box; other site 883004258 G3 box; other site 883004259 Switch II region; other site 883004260 G4 box; other site 883004261 G5 box; other site 883004262 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 883004263 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 883004264 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 883004265 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 883004266 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 883004267 substrate binding site; other site 883004268 tetramer interface; other site 883004269 TRAM domain; Region: TRAM; pfam01938 883004270 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 883004271 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 883004272 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 883004273 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 883004274 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 883004275 ATP synthase subunit C; Region: ATP-synt_C; cl00466 883004276 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 883004277 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 883004278 CoA binding domain; Region: CoA_binding; pfam02629 883004279 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 883004280 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 883004281 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 883004282 Uncharacterized conserved protein [Function unknown]; Region: COG3334 883004283 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 883004284 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 883004285 dimerization interface 3.5A [polypeptide binding]; other site 883004286 active site 883004287 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 883004288 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 883004289 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 883004290 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 883004291 lipoyl synthase; Provisional; Region: PRK05481 883004292 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 883004293 FeS/SAM binding site; other site 883004294 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 883004295 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 883004296 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 883004297 FeS/SAM binding site; other site 883004298 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 883004299 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 883004300 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 883004301 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 883004302 NlpC/P60 family; Region: NLPC_P60; cl17555 883004303 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 883004304 AAA domain; Region: AAA_30; pfam13604 883004305 Family description; Region: UvrD_C_2; pfam13538 883004306 FecR protein; Region: FecR; pfam04773 883004307 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 883004308 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883004309 ligand binding site [chemical binding]; other site 883004310 CHASE2 domain; Region: CHASE2; pfam05226 883004311 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004312 Zn2+ binding site [ion binding]; other site 883004313 Mg2+ binding site [ion binding]; other site 883004314 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 883004315 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 883004316 Tetramer interface [polypeptide binding]; other site 883004317 active site 883004318 FMN-binding site [chemical binding]; other site 883004319 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 883004320 Ligand Binding Site [chemical binding]; other site 883004321 shikimate kinase; Reviewed; Region: aroK; PRK00131 883004322 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 883004323 ADP binding site [chemical binding]; other site 883004324 magnesium binding site [ion binding]; other site 883004325 putative shikimate binding site; other site 883004326 aminotransferase; Validated; Region: PRK08175 883004327 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 883004328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883004329 homodimer interface [polypeptide binding]; other site 883004330 catalytic residue [active] 883004331 homoserine dehydrogenase; Provisional; Region: PRK06349 883004332 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 883004333 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 883004334 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 883004335 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 883004336 GIY-YIG motif/motif A; other site 883004337 putative active site [active] 883004338 putative metal binding site [ion binding]; other site 883004339 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 883004340 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 883004341 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 883004342 Heavy-metal-associated domain; Region: HMA; pfam00403 883004343 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 883004344 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883004345 Soluble P-type ATPase [General function prediction only]; Region: COG4087 883004346 Response regulator receiver domain; Region: Response_reg; pfam00072 883004347 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 883004348 active site 883004349 phosphorylation site [posttranslational modification] 883004350 intermolecular recognition site; other site 883004351 dimerization interface [polypeptide binding]; other site 883004352 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 883004353 PAS fold; Region: PAS_3; pfam08447 883004354 putative active site [active] 883004355 heme pocket [chemical binding]; other site 883004356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 883004357 Histidine kinase; Region: HisKA_2; pfam07568 883004358 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 883004359 ATP binding site [chemical binding]; other site 883004360 Mg2+ binding site [ion binding]; other site 883004361 G-X-G motif; other site 883004362 MltA specific insert domain; Region: MltA; smart00925 883004363 3D domain; Region: 3D; pfam06725 883004364 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 883004365 active site 883004366 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 883004367 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 883004368 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 883004369 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 883004370 active site 883004371 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 883004372 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 883004373 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 883004374 dihydroorotase; Validated; Region: pyrC; PRK09357 883004375 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 883004376 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 883004377 active site 883004378 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 883004379 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 883004380 HD domain; Region: HD; pfam01966 883004381 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 883004382 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 883004383 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 883004384 active site 883004385 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 883004386 active site 2 [active] 883004387 MarR family; Region: MarR_2; pfam12802 883004388 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 883004389 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 883004390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883004391 putative substrate translocation pore; other site 883004392 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 883004393 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 883004394 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 883004395 FeS/SAM binding site; other site 883004396 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 883004397 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 883004398 active site 883004399 NAD binding site [chemical binding]; other site 883004400 metal binding site [ion binding]; metal-binding site 883004401 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 883004402 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 883004403 active site 883004404 DNA binding site [nucleotide binding] 883004405 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 883004406 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 883004407 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 883004408 Catalytic site [active] 883004409 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 883004410 MarR family; Region: MarR; pfam01047 883004411 MarR family; Region: MarR_2; cl17246 883004412 Predicted membrane protein [Function unknown]; Region: COG2119 883004413 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 883004414 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 883004415 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883004416 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 883004417 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 883004418 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 883004419 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 883004420 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 883004421 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 883004422 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 883004423 S-adenosylmethionine binding site [chemical binding]; other site 883004424 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 883004425 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 883004426 peptide chain release factor 1; Validated; Region: prfA; PRK00591 883004427 This domain is found in peptide chain release factors; Region: PCRF; smart00937 883004428 RF-1 domain; Region: RF-1; pfam00472 883004429 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 883004430 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 883004431 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 883004432 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 883004433 elongation factor Tu; Reviewed; Region: PRK00049 883004434 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 883004435 G1 box; other site 883004436 GEF interaction site [polypeptide binding]; other site 883004437 GTP/Mg2+ binding site [chemical binding]; other site 883004438 Switch I region; other site 883004439 G2 box; other site 883004440 G3 box; other site 883004441 Switch II region; other site 883004442 G4 box; other site 883004443 G5 box; other site 883004444 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 883004445 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 883004446 Antibiotic Binding Site [chemical binding]; other site 883004447 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 883004448 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 883004449 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 883004450 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 883004451 putative homodimer interface [polypeptide binding]; other site 883004452 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 883004453 heterodimer interface [polypeptide binding]; other site 883004454 homodimer interface [polypeptide binding]; other site 883004455 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 883004456 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 883004457 23S rRNA interface [nucleotide binding]; other site 883004458 L7/L12 interface [polypeptide binding]; other site 883004459 putative thiostrepton binding site; other site 883004460 L25 interface [polypeptide binding]; other site 883004461 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 883004462 mRNA/rRNA interface [nucleotide binding]; other site 883004463 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 883004464 23S rRNA interface [nucleotide binding]; other site 883004465 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 883004466 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 883004467 core dimer interface [polypeptide binding]; other site 883004468 peripheral dimer interface [polypeptide binding]; other site 883004469 L10 interface [polypeptide binding]; other site 883004470 L11 interface [polypeptide binding]; other site 883004471 putative EF-Tu interaction site [polypeptide binding]; other site 883004472 putative EF-G interaction site [polypeptide binding]; other site 883004473 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 883004474 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 883004475 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 883004476 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 883004477 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 883004478 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 883004479 RPB3 interaction site [polypeptide binding]; other site 883004480 RPB1 interaction site [polypeptide binding]; other site 883004481 RPB11 interaction site [polypeptide binding]; other site 883004482 RPB10 interaction site [polypeptide binding]; other site 883004483 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 883004484 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 883004485 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 883004486 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 883004487 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 883004488 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 883004489 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 883004490 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 883004491 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 883004492 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 883004493 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 883004494 DNA binding site [nucleotide binding] 883004495 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 883004496 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 883004497 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 883004498 dimerization interface [polypeptide binding]; other site 883004499 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883004500 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 883004501 putative active site [active] 883004502 heme pocket [chemical binding]; other site 883004503 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 883004504 dimer interface [polypeptide binding]; other site 883004505 phosphorylation site [posttranslational modification] 883004506 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 883004507 ATP binding site [chemical binding]; other site 883004508 Mg2+ binding site [ion binding]; other site 883004509 G-X-G motif; other site 883004510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004511 TIGR01777 family protein; Region: yfcH 883004512 NAD(P) binding site [chemical binding]; other site 883004513 active site 883004514 Response regulator receiver domain; Region: Response_reg; pfam00072 883004515 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 883004516 active site 883004517 phosphorylation site [posttranslational modification] 883004518 intermolecular recognition site; other site 883004519 dimerization interface [polypeptide binding]; other site 883004520 PAS fold; Region: PAS_4; pfam08448 883004521 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 883004522 putative active site [active] 883004523 heme pocket [chemical binding]; other site 883004524 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 883004525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004526 Zn2+ binding site [ion binding]; other site 883004527 Mg2+ binding site [ion binding]; other site 883004528 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883004529 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 883004530 active site 883004531 phosphorylation site [posttranslational modification] 883004532 intermolecular recognition site; other site 883004533 dimerization interface [polypeptide binding]; other site 883004534 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 883004535 Walker A motif; other site 883004536 ATP binding site [chemical binding]; other site 883004537 Walker B motif; other site 883004538 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883004539 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 883004540 catalytic core [active] 883004541 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 883004542 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 883004543 Response regulator receiver domain; Region: Response_reg; pfam00072 883004544 active site 883004545 phosphorylation site [posttranslational modification] 883004546 intermolecular recognition site; other site 883004547 dimerization interface [polypeptide binding]; other site 883004548 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 883004549 TPR motif; other site 883004550 Tetratricopeptide repeat; Region: TPR_12; pfam13424 883004551 binding surface 883004552 TPR repeat; Region: TPR_11; pfam13414 883004553 TPR repeat; Region: TPR_11; pfam13414 883004554 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 883004555 binding surface 883004556 TPR motif; other site 883004557 Domain of unknown function DUF39; Region: DUF39; pfam01837 883004558 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 883004559 Ligand Binding Site [chemical binding]; other site 883004560 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 883004561 adenylosuccinate lyase; Provisional; Region: PRK07492 883004562 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 883004563 tetramer interface [polypeptide binding]; other site 883004564 active site 883004565 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 883004566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883004567 active site 883004568 SnoaL-like domain; Region: SnoaL_3; pfam13474 883004569 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 883004570 ATP cone domain; Region: ATP-cone; pfam03477 883004571 Class III ribonucleotide reductase; Region: RNR_III; cd01675 883004572 effector binding site; other site 883004573 active site 883004574 Zn binding site [ion binding]; other site 883004575 glycine loop; other site 883004576 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883004577 Protein of unknown function, DUF486; Region: DUF486; cl01236 883004578 PAS domain S-box; Region: sensory_box; TIGR00229 883004579 PAS fold; Region: PAS_3; pfam08447 883004580 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 883004581 putative active site [active] 883004582 heme pocket [chemical binding]; other site 883004583 PAS domain S-box; Region: sensory_box; TIGR00229 883004584 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 883004585 putative active site [active] 883004586 heme pocket [chemical binding]; other site 883004587 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 883004588 PAS domain; Region: PAS_9; pfam13426 883004589 putative active site [active] 883004590 heme pocket [chemical binding]; other site 883004591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883004592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004593 metal binding site [ion binding]; metal-binding site 883004594 active site 883004595 I-site; other site 883004596 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883004597 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 883004598 putative ligand binding site [chemical binding]; other site 883004599 Transcriptional regulators [Transcription]; Region: GntR; COG1802 883004600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883004601 DNA-binding site [nucleotide binding]; DNA binding site 883004602 FCD domain; Region: FCD; pfam07729 883004603 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883004604 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 883004605 Walker A/P-loop; other site 883004606 ATP binding site [chemical binding]; other site 883004607 Q-loop/lid; other site 883004608 ABC transporter signature motif; other site 883004609 Walker B; other site 883004610 D-loop; other site 883004611 H-loop/switch region; other site 883004612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883004613 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 883004614 Walker A/P-loop; other site 883004615 ATP binding site [chemical binding]; other site 883004616 Q-loop/lid; other site 883004617 ABC transporter signature motif; other site 883004618 Walker B; other site 883004619 D-loop; other site 883004620 H-loop/switch region; other site 883004621 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 883004622 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 883004623 TM-ABC transporter signature motif; other site 883004624 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 883004625 TM-ABC transporter signature motif; other site 883004626 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883004627 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 883004628 putative [Fe4-S4] binding site [ion binding]; other site 883004629 putative molybdopterin cofactor binding site [chemical binding]; other site 883004630 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 883004631 putative molybdopterin cofactor binding site; other site 883004632 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 883004633 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883004634 active site 883004635 HIGH motif; other site 883004636 nucleotide binding site [chemical binding]; other site 883004637 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 883004638 KMSKS motif; other site 883004639 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 883004640 GTPase RsgA; Reviewed; Region: PRK01889 883004641 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 883004642 GTPase/Zn-binding domain interface [polypeptide binding]; other site 883004643 GTP/Mg2+ binding site [chemical binding]; other site 883004644 G4 box; other site 883004645 G5 box; other site 883004646 G1 box; other site 883004647 Switch I region; other site 883004648 G2 box; other site 883004649 G3 box; other site 883004650 Switch II region; other site 883004651 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 883004652 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 883004653 Coenzyme A binding pocket [chemical binding]; other site 883004654 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 883004655 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883004656 Cytochrome c552; Region: Cytochrom_C552; pfam02335 883004657 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 883004658 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883004659 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 883004660 dimer interface [polypeptide binding]; other site 883004661 phosphorylation site [posttranslational modification] 883004662 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 883004663 ATP binding site [chemical binding]; other site 883004664 Mg2+ binding site [ion binding]; other site 883004665 G-X-G motif; other site 883004666 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 883004667 active site 883004668 phosphorylation site [posttranslational modification] 883004669 intermolecular recognition site; other site 883004670 dimerization interface [polypeptide binding]; other site 883004671 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 883004672 putative binding surface; other site 883004673 active site 883004674 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 883004675 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 883004676 active site 883004677 phosphorylation site [posttranslational modification] 883004678 intermolecular recognition site; other site 883004679 dimerization interface [polypeptide binding]; other site 883004680 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 883004681 Walker A motif; other site 883004682 ATP binding site [chemical binding]; other site 883004683 Walker B motif; other site 883004684 arginine finger; other site 883004685 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 883004686 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 883004687 metal ion-dependent adhesion site (MIDAS); other site 883004688 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 883004689 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 883004690 active site 883004691 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 883004692 active site 883004693 N-terminal domain interface [polypeptide binding]; other site 883004694 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 883004695 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 883004696 putative PBP binding regions; other site 883004697 ABC-ATPase subunit interface; other site 883004698 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 883004699 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 883004700 Walker A/P-loop; other site 883004701 ATP binding site [chemical binding]; other site 883004702 Q-loop/lid; other site 883004703 ABC transporter signature motif; other site 883004704 Walker B; other site 883004705 D-loop; other site 883004706 H-loop/switch region; other site 883004707 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 883004708 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 883004709 intersubunit interface [polypeptide binding]; other site 883004710 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 883004711 active site 883004712 SAM binding site [chemical binding]; other site 883004713 homodimer interface [polypeptide binding]; other site 883004714 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 883004715 Cache domain; Region: Cache_1; pfam02743 883004716 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 883004717 dimerization interface [polypeptide binding]; other site 883004718 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883004719 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883004720 dimer interface [polypeptide binding]; other site 883004721 putative CheW interface [polypeptide binding]; other site 883004722 Protein of unknown function (DUF330); Region: DUF330; cl01135 883004723 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 883004724 mce related protein; Region: MCE; pfam02470 883004725 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 883004726 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 883004727 Walker A/P-loop; other site 883004728 ATP binding site [chemical binding]; other site 883004729 Q-loop/lid; other site 883004730 ABC transporter signature motif; other site 883004731 Walker B; other site 883004732 D-loop; other site 883004733 H-loop/switch region; other site 883004734 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 883004735 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 883004736 Permease; Region: Permease; pfam02405 883004737 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 883004738 putative active site [active] 883004739 metal binding site [ion binding]; metal-binding site 883004740 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883004741 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 883004742 Walker A motif; other site 883004743 ATP binding site [chemical binding]; other site 883004744 Walker B motif; other site 883004745 arginine finger; other site 883004746 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 883004747 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 883004748 homotrimer interaction site [polypeptide binding]; other site 883004749 putative active site [active] 883004750 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 883004751 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004752 Zn2+ binding site [ion binding]; other site 883004753 Mg2+ binding site [ion binding]; other site 883004754 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883004755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004756 metal binding site [ion binding]; metal-binding site 883004757 active site 883004758 I-site; other site 883004759 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 883004760 Protein export membrane protein; Region: SecD_SecF; cl14618 883004761 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883004762 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883004763 HlyD family secretion protein; Region: HlyD_3; pfam13437 883004764 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883004765 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883004766 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 883004767 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883004768 NADH dehydrogenase; Region: NADHdh; cl00469 883004769 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 883004770 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 883004771 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 883004772 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 883004773 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 883004774 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883004775 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 883004776 Uncharacterized conserved protein [Function unknown]; Region: COG1359 883004777 Chromate transporter; Region: Chromate_transp; pfam02417 883004778 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 883004779 Chromate transporter; Region: Chromate_transp; pfam02417 883004780 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 883004781 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 883004782 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 883004783 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 883004784 putative active site [active] 883004785 catalytic site [active] 883004786 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 883004787 putative active site [active] 883004788 catalytic site [active] 883004789 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 883004790 Ligand Binding Site [chemical binding]; other site 883004791 PAS fold; Region: PAS_4; pfam08448 883004792 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 883004793 putative active site [active] 883004794 heme pocket [chemical binding]; other site 883004795 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 883004796 PAS domain; Region: PAS_9; pfam13426 883004797 putative active site [active] 883004798 heme pocket [chemical binding]; other site 883004799 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883004800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004801 metal binding site [ion binding]; metal-binding site 883004802 active site 883004803 I-site; other site 883004804 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 883004805 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 883004806 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 883004807 dimer interface [polypeptide binding]; other site 883004808 active site 883004809 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883004810 catalytic residues [active] 883004811 substrate binding site [chemical binding]; other site 883004812 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 883004813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004814 arginine decarboxylase; Provisional; Region: PRK05354 883004815 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 883004816 dimer interface [polypeptide binding]; other site 883004817 active site 883004818 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883004819 catalytic residues [active] 883004820 substrate binding site [chemical binding]; other site 883004821 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 883004822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883004823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004824 metal binding site [ion binding]; metal-binding site 883004825 active site 883004826 I-site; other site 883004827 multifunctional aminopeptidase A; Provisional; Region: PRK00913 883004828 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 883004829 interface (dimer of trimers) [polypeptide binding]; other site 883004830 Substrate-binding/catalytic site; other site 883004831 Zn-binding sites [ion binding]; other site 883004832 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 883004833 Malic enzyme, N-terminal domain; Region: malic; pfam00390 883004834 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 883004835 putative NAD(P) binding site [chemical binding]; other site 883004836 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 883004837 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 883004838 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883004839 TrkA-N domain; Region: TrkA_N; pfam02254 883004840 TrkA-C domain; Region: TrkA_C; pfam02080 883004841 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 883004842 EamA-like transporter family; Region: EamA; pfam00892 883004843 EamA-like transporter family; Region: EamA; pfam00892 883004844 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 883004845 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 883004846 Response regulator receiver domain; Region: Response_reg; pfam00072 883004847 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 883004848 active site 883004849 phosphorylation site [posttranslational modification] 883004850 intermolecular recognition site; other site 883004851 dimerization interface [polypeptide binding]; other site 883004852 PAS fold; Region: PAS_4; pfam08448 883004853 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 883004854 putative active site [active] 883004855 heme pocket [chemical binding]; other site 883004856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883004857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004858 metal binding site [ion binding]; metal-binding site 883004859 active site 883004860 I-site; other site 883004861 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 883004862 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883004863 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883004864 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 883004865 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 883004866 putative active site [active] 883004867 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 883004868 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 883004869 Sporulation related domain; Region: SPOR; pfam05036 883004870 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 883004871 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 883004872 active site 883004873 catalytic residues [active] 883004874 metal binding site [ion binding]; metal-binding site 883004875 Cache domain; Region: Cache_1; pfam02743 883004876 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 883004877 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 883004878 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 883004879 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 883004880 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 883004881 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 883004882 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 883004883 catalytic triad [active] 883004884 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 883004885 MarR family; Region: MarR_2; cl17246 883004886 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 883004887 transmembrane helices; other site 883004888 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 883004889 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 883004890 IHF - DNA interface [nucleotide binding]; other site 883004891 IHF dimer interface [polypeptide binding]; other site 883004892 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 883004893 HIT family signature motif; other site 883004894 catalytic residue [active] 883004895 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883004896 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 883004897 ligand binding site [chemical binding]; other site 883004898 active site 883004899 UGI interface [polypeptide binding]; other site 883004900 catalytic site [active] 883004901 aspartate aminotransferase; Provisional; Region: PRK05764 883004902 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 883004903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883004904 homodimer interface [polypeptide binding]; other site 883004905 catalytic residue [active] 883004906 FAD binding domain; Region: FAD_binding_4; pfam01565 883004907 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883004908 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883004909 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 883004910 dimer interface [polypeptide binding]; other site 883004911 conserved gate region; other site 883004912 putative PBP binding loops; other site 883004913 ABC-ATPase subunit interface; other site 883004914 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883004915 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 883004916 Walker A/P-loop; other site 883004917 ATP binding site [chemical binding]; other site 883004918 Q-loop/lid; other site 883004919 ABC transporter signature motif; other site 883004920 Walker B; other site 883004921 D-loop; other site 883004922 H-loop/switch region; other site 883004923 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883004924 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 883004925 dimer interface [polypeptide binding]; other site 883004926 conserved gate region; other site 883004927 putative PBP binding loops; other site 883004928 ABC-ATPase subunit interface; other site 883004929 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 883004930 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883004931 substrate binding pocket [chemical binding]; other site 883004932 membrane-bound complex binding site; other site 883004933 hinge residues; other site 883004934 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 883004935 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 883004936 Bacterial sugar transferase; Region: Bac_transf; pfam02397 883004937 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883004938 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 883004939 putative active site [active] 883004940 putative transporter; Provisional; Region: PRK11660 883004941 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 883004942 Sulfate transporter family; Region: Sulfate_transp; pfam00916 883004943 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 883004944 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 883004945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883004946 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 883004947 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 883004948 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 883004949 NodB motif; other site 883004950 active site 883004951 catalytic site [active] 883004952 metal binding site [ion binding]; metal-binding site 883004953 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 883004954 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883004955 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 883004956 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 883004957 TM-ABC transporter signature motif; other site 883004958 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 883004959 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 883004960 TM-ABC transporter signature motif; other site 883004961 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883004962 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 883004963 Walker A/P-loop; other site 883004964 ATP binding site [chemical binding]; other site 883004965 Q-loop/lid; other site 883004966 ABC transporter signature motif; other site 883004967 Walker B; other site 883004968 D-loop; other site 883004969 H-loop/switch region; other site 883004970 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883004971 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 883004972 Walker A/P-loop; other site 883004973 ATP binding site [chemical binding]; other site 883004974 Q-loop/lid; other site 883004975 ABC transporter signature motif; other site 883004976 Walker B; other site 883004977 D-loop; other site 883004978 H-loop/switch region; other site 883004979 FOG: CBS domain [General function prediction only]; Region: COG0517 883004980 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 883004981 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 883004982 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 883004983 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 883004984 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883004985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883004986 Walker A/P-loop; other site 883004987 ATP binding site [chemical binding]; other site 883004988 Q-loop/lid; other site 883004989 ABC transporter signature motif; other site 883004990 Walker B; other site 883004991 D-loop; other site 883004992 H-loop/switch region; other site 883004993 TOBE domain; Region: TOBE_2; pfam08402 883004994 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 883004995 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 883004996 dimer interface [polypeptide binding]; other site 883004997 conserved gate region; other site 883004998 putative PBP binding loops; other site 883004999 ABC-ATPase subunit interface; other site 883005000 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 883005001 dimer interface [polypeptide binding]; other site 883005002 conserved gate region; other site 883005003 putative PBP binding loops; other site 883005004 ABC-ATPase subunit interface; other site 883005005 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883005006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883005007 Walker A/P-loop; other site 883005008 ATP binding site [chemical binding]; other site 883005009 Q-loop/lid; other site 883005010 ABC transporter signature motif; other site 883005011 Walker B; other site 883005012 D-loop; other site 883005013 H-loop/switch region; other site 883005014 TOBE domain; Region: TOBE_2; pfam08402 883005015 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 883005016 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 883005017 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 883005018 Domain of unknown function (DUF303); Region: DUF303; pfam03629 883005019 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 883005020 NADH dehydrogenase subunit B; Validated; Region: PRK06411 883005021 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 883005022 NADH dehydrogenase subunit D; Validated; Region: PRK06075 883005023 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 883005024 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 883005025 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 883005026 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 883005027 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 883005028 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 883005029 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 883005030 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883005031 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 883005032 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883005033 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 883005034 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883005035 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 883005036 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883005037 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883005038 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 883005039 active site 883005040 phosphorylation site [posttranslational modification] 883005041 intermolecular recognition site; other site 883005042 dimerization interface [polypeptide binding]; other site 883005043 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 883005044 DNA binding residues [nucleotide binding] 883005045 dimerization interface [polypeptide binding]; other site 883005046 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 883005047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883005048 substrate binding pocket [chemical binding]; other site 883005049 membrane-bound complex binding site; other site 883005050 hinge residues; other site 883005051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 883005052 Histidine kinase; Region: HisKA_3; pfam07730 883005053 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 883005054 ATP binding site [chemical binding]; other site 883005055 Mg2+ binding site [ion binding]; other site 883005056 G-X-G motif; other site 883005057 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 883005058 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 883005059 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883005060 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 883005061 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 883005062 putative [Fe4-S4] binding site [ion binding]; other site 883005063 putative molybdopterin cofactor binding site [chemical binding]; other site 883005064 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 883005065 putative molybdopterin cofactor binding site; other site 883005066 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 883005067 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 883005068 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 883005069 putative MPT binding site; other site 883005070 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 883005071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883005072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883005073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883005074 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 883005075 Putative zinc-finger; Region: zf-HC2; pfam13490 883005076 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 883005077 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 883005078 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 883005079 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883005080 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 883005081 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883005082 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 883005083 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883005084 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883005085 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883005086 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883005087 flagellar capping protein; Provisional; Region: PRK12765 883005088 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 883005089 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 883005090 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883005091 flagellin; Provisional; Region: PRK12802 883005092 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883005093 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 883005094 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883005095 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 883005096 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 883005097 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 883005098 active site 883005099 phosphorylation site [posttranslational modification] 883005100 intermolecular recognition site; other site 883005101 dimerization interface [polypeptide binding]; other site 883005102 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 883005103 DNA binding site [nucleotide binding] 883005104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005105 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 883005106 dimerization interface [polypeptide binding]; other site 883005107 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 883005108 dimer interface [polypeptide binding]; other site 883005109 phosphorylation site [posttranslational modification] 883005110 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 883005111 ATP binding site [chemical binding]; other site 883005112 Mg2+ binding site [ion binding]; other site 883005113 G-X-G motif; other site 883005114 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 883005115 EF-hand domain pair; Region: EF_hand_5; pfam13499 883005116 Ca2+ binding site [ion binding]; other site 883005117 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883005118 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883005119 HlyD family secretion protein; Region: HlyD_3; pfam13437 883005120 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883005121 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883005122 Walker A/P-loop; other site 883005123 ATP binding site [chemical binding]; other site 883005124 Q-loop/lid; other site 883005125 ABC transporter signature motif; other site 883005126 Walker B; other site 883005127 D-loop; other site 883005128 H-loop/switch region; other site 883005129 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883005130 FtsX-like permease family; Region: FtsX; pfam02687 883005131 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 883005132 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 883005133 active site 883005134 phosphorylation site [posttranslational modification] 883005135 intermolecular recognition site; other site 883005136 dimerization interface [polypeptide binding]; other site 883005137 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 883005138 DNA binding site [nucleotide binding] 883005139 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 883005140 dimerization interface [polypeptide binding]; other site 883005141 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 883005142 dimer interface [polypeptide binding]; other site 883005143 phosphorylation site [posttranslational modification] 883005144 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 883005145 ATP binding site [chemical binding]; other site 883005146 Mg2+ binding site [ion binding]; other site 883005147 G-X-G motif; other site 883005148 Cache domain; Region: Cache_1; pfam02743 883005149 PAS domain; Region: PAS_9; pfam13426 883005150 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883005151 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883005152 dimer interface [polypeptide binding]; other site 883005153 putative CheW interface [polypeptide binding]; other site 883005154 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 883005155 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 883005156 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 883005157 non-specific DNA binding site [nucleotide binding]; other site 883005158 salt bridge; other site 883005159 sequence-specific DNA binding site [nucleotide binding]; other site 883005160 Phage-related protein, tail component [Function unknown]; Region: COG4733 883005161 tape measure domain; Region: tape_meas_nterm; TIGR02675 883005162 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 883005163 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 883005164 BRO family, N-terminal domain; Region: Bro-N; smart01040 883005165 P63C domain; Region: P63C; pfam10546 883005166 Phage major tail protein 2; Region: Phage_tail_2; cl11463 883005167 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 883005168 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 883005169 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 883005170 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 883005171 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 883005172 oligomerization interface [polypeptide binding]; other site 883005173 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 883005174 PCRF domain; Region: PCRF; cl17745 883005175 Phage capsid family; Region: Phage_capsid; pfam05065 883005176 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 883005177 Phage portal protein; Region: Phage_portal; pfam04860 883005178 Phage-related protein [Function unknown]; Region: COG4695 883005179 Phage Terminase; Region: Terminase_1; pfam03354 883005180 Phage terminase, small subunit; Region: Terminase_4; cl01525 883005181 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 883005182 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 883005183 active site 883005184 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 883005185 virion protein; Provisional; Region: V; PHA02564 883005186 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 883005187 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 883005188 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 883005189 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 883005190 non-specific DNA binding site [nucleotide binding]; other site 883005191 salt bridge; other site 883005192 sequence-specific DNA binding site [nucleotide binding]; other site 883005193 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 883005194 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 883005195 Helix-turn-helix domain; Region: HTH_38; pfam13936 883005196 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883005197 Predicted transcriptional regulator [Transcription]; Region: COG2932 883005198 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 883005199 Catalytic site [active] 883005200 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 883005201 chaperone protein DnaJ; Provisional; Region: PRK10767 883005202 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 883005203 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 883005204 active site 883005205 catalytic residues [active] 883005206 DNA binding site [nucleotide binding] 883005207 Int/Topo IB signature motif; other site 883005208 GAF domain; Region: GAF_3; pfam13492 883005209 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 883005210 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 883005211 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 883005212 PAS domain; Region: PAS_9; pfam13426 883005213 putative active site [active] 883005214 heme pocket [chemical binding]; other site 883005215 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 883005216 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883005217 Walker A motif; other site 883005218 ATP binding site [chemical binding]; other site 883005219 Walker B motif; other site 883005220 arginine finger; other site 883005221 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 883005222 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883005223 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 883005224 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 883005225 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 883005226 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 883005227 AAA domain; Region: AAA_33; pfam13671 883005228 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 883005229 catalytic core [active] 883005230 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 883005231 dimerization interface [polypeptide binding]; other site 883005232 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883005233 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883005234 dimer interface [polypeptide binding]; other site 883005235 putative CheW interface [polypeptide binding]; other site 883005236 Hemerythrin; Region: Hemerythrin; cd12107 883005237 Fe binding site [ion binding]; other site 883005238 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 883005239 active site 883005240 dimerization interface [polypeptide binding]; other site 883005241 PAS domain; Region: PAS_9; pfam13426 883005242 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 883005243 putative active site [active] 883005244 heme pocket [chemical binding]; other site 883005245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005246 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 883005247 dimer interface [polypeptide binding]; other site 883005248 phosphorylation site [posttranslational modification] 883005249 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 883005250 ATP binding site [chemical binding]; other site 883005251 Mg2+ binding site [ion binding]; other site 883005252 G-X-G motif; other site 883005253 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 883005254 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 883005255 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 883005256 FeS/SAM binding site; other site 883005257 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 883005258 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 883005259 RNA binding site [nucleotide binding]; other site 883005260 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 883005261 RNA binding site [nucleotide binding]; other site 883005262 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 883005263 RNA binding site [nucleotide binding]; other site 883005264 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 883005265 RNA binding site [nucleotide binding]; other site 883005266 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 883005267 RNA binding site [nucleotide binding]; other site 883005268 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 883005269 RNA binding site [nucleotide binding]; other site 883005270 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 883005271 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 883005272 tandem repeat interface [polypeptide binding]; other site 883005273 oligomer interface [polypeptide binding]; other site 883005274 active site residues [active] 883005275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 883005276 Coenzyme A binding pocket [chemical binding]; other site 883005277 4-alpha-glucanotransferase; Provisional; Region: PRK14508 883005278 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 883005279 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 883005280 glutaminase active site [active] 883005281 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 883005282 dimer interface [polypeptide binding]; other site 883005283 active site 883005284 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 883005285 dimer interface [polypeptide binding]; other site 883005286 active site 883005287 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 883005288 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 883005289 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 883005290 ligand binding site [chemical binding]; other site 883005291 flexible hinge region; other site 883005292 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; cl17320 883005293 non-specific DNA interactions [nucleotide binding]; other site 883005294 DNA binding site [nucleotide binding] 883005295 sequence specific DNA binding site [nucleotide binding]; other site 883005296 putative cAMP binding site [chemical binding]; other site 883005297 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883005298 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 883005299 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 883005300 L-aspartate oxidase; Provisional; Region: PRK06175 883005301 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 883005302 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883005303 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 883005304 DNA polymerase I; Provisional; Region: PRK05755 883005305 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 883005306 active site 883005307 metal binding site 1 [ion binding]; metal-binding site 883005308 putative 5' ssDNA interaction site; other site 883005309 metal binding site 3; metal-binding site 883005310 metal binding site 2 [ion binding]; metal-binding site 883005311 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 883005312 putative DNA binding site [nucleotide binding]; other site 883005313 putative metal binding site [ion binding]; other site 883005314 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 883005315 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 883005316 active site 883005317 DNA binding site [nucleotide binding] 883005318 catalytic site [active] 883005319 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 883005320 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 883005321 putative RNA binding site [nucleotide binding]; other site 883005322 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 883005323 S-adenosylmethionine binding site [chemical binding]; other site 883005324 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 883005325 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883005326 catalytic residue [active] 883005327 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 883005328 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 883005329 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 883005330 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 883005331 PAS domain; Region: PAS_9; pfam13426 883005332 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883005333 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883005334 dimer interface [polypeptide binding]; other site 883005335 putative CheW interface [polypeptide binding]; other site 883005336 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 883005337 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 883005338 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883005339 Zn2+ binding site [ion binding]; other site 883005340 Mg2+ binding site [ion binding]; other site 883005341 EAL domain; Region: EAL; pfam00563 883005342 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 883005343 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 883005344 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883005345 acyl-activating enzyme (AAE) consensus motif; other site 883005346 AMP binding site [chemical binding]; other site 883005347 active site 883005348 CoA binding site [chemical binding]; other site 883005349 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 883005350 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 883005351 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 883005352 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 883005353 AIR carboxylase; Region: AIRC; pfam00731 883005354 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 883005355 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 883005356 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 883005357 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 883005358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883005359 Walker A/P-loop; other site 883005360 ATP binding site [chemical binding]; other site 883005361 Q-loop/lid; other site 883005362 ABC transporter signature motif; other site 883005363 Walker B; other site 883005364 D-loop; other site 883005365 H-loop/switch region; other site 883005366 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 883005367 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 883005368 ATP binding site [chemical binding]; other site 883005369 Mg2+ binding site [ion binding]; other site 883005370 G-X-G motif; other site 883005371 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 883005372 ATP binding site [chemical binding]; other site 883005373 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 883005374 Response regulator receiver domain; Region: Response_reg; pfam00072 883005375 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 883005376 active site 883005377 phosphorylation site [posttranslational modification] 883005378 intermolecular recognition site; other site 883005379 dimerization interface [polypeptide binding]; other site 883005380 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 883005381 PAS fold; Region: PAS_3; pfam08447 883005382 putative active site [active] 883005383 heme pocket [chemical binding]; other site 883005384 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 883005385 dimer interface [polypeptide binding]; other site 883005386 phosphorylation site [posttranslational modification] 883005387 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883005388 heme-binding residues [chemical binding]; other site 883005389 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 883005390 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 883005391 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 883005392 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 883005393 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 883005394 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 883005395 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 883005396 NADP binding site [chemical binding]; other site 883005397 homopentamer interface [polypeptide binding]; other site 883005398 substrate binding site [chemical binding]; other site 883005399 active site 883005400 Flagellin N-methylase; Region: FliB; pfam03692 883005401 Catalytic domain of Protein Kinases; Region: PKc; cd00180 883005402 active site 883005403 ATP binding site [chemical binding]; other site 883005404 substrate binding site [chemical binding]; other site 883005405 activation loop (A-loop); other site 883005406 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 883005407 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 883005408 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 883005409 active site 883005410 metal binding site [ion binding]; metal-binding site 883005411 Tetratricopeptide repeat; Region: TPR_16; pfam13432 883005412 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 883005413 TPR motif; other site 883005414 isocitrate dehydrogenase; Validated; Region: PRK06451 883005415 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 883005416 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 883005417 substrate binding site [chemical binding]; other site 883005418 active site 883005419 catalytic residues [active] 883005420 heterodimer interface [polypeptide binding]; other site 883005421 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 883005422 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 883005423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005424 catalytic residue [active] 883005425 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 883005426 active site 883005427 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 883005428 active site 883005429 ribulose/triose binding site [chemical binding]; other site 883005430 phosphate binding site [ion binding]; other site 883005431 substrate (anthranilate) binding pocket [chemical binding]; other site 883005432 product (indole) binding pocket [chemical binding]; other site 883005433 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 883005434 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 883005435 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 883005436 Glutamine amidotransferase class-I; Region: GATase; pfam00117 883005437 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 883005438 glutamine binding [chemical binding]; other site 883005439 catalytic triad [active] 883005440 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 883005441 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 883005442 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 883005443 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 883005444 prephenate dehydrogenase; Provisional; Region: PRK06444 883005445 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 883005446 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 883005447 hinge; other site 883005448 active site 883005449 Chorismate mutase type II; Region: CM_2; pfam01817 883005450 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 883005451 Prephenate dehydratase; Region: PDT; pfam00800 883005452 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 883005453 putative L-Phe binding site [chemical binding]; other site 883005454 3-dehydroquinate synthase; Provisional; Region: PRK02290 883005455 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 883005456 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 883005457 putative active site; other site 883005458 catalytic residue [active] 883005459 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 883005460 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 883005461 DHH family; Region: DHH; pfam01368 883005462 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 883005463 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 883005464 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 883005465 Part of AAA domain; Region: AAA_19; pfam13245 883005466 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 883005467 Family description; Region: UvrD_C_2; pfam13538 883005468 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 883005469 Part of AAA domain; Region: AAA_19; pfam13245 883005470 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 883005471 AAA domain; Region: AAA_12; pfam13087 883005472 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 883005473 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 883005474 Cl- selectivity filter; other site 883005475 Cl- binding residues [ion binding]; other site 883005476 pore gating glutamate residue; other site 883005477 dimer interface [polypeptide binding]; other site 883005478 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 883005479 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 883005480 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 883005481 active site 883005482 Riboflavin kinase; Region: Flavokinase; pfam01687 883005483 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 883005484 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883005485 Walker A motif; other site 883005486 ATP binding site [chemical binding]; other site 883005487 Walker B motif; other site 883005488 arginine finger; other site 883005489 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883005490 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883005491 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 883005492 PAS domain; Region: PAS_9; pfam13426 883005493 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883005494 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 883005495 Walker A motif; other site 883005496 ATP binding site [chemical binding]; other site 883005497 Walker B motif; other site 883005498 arginine finger; other site 883005499 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883005500 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 883005501 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005502 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 883005503 dimer interface [polypeptide binding]; other site 883005504 phosphorylation site [posttranslational modification] 883005505 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 883005506 ATP binding site [chemical binding]; other site 883005507 Mg2+ binding site [ion binding]; other site 883005508 G-X-G motif; other site 883005509 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 883005510 Response regulator receiver domain; Region: Response_reg; pfam00072 883005511 active site 883005512 phosphorylation site [posttranslational modification] 883005513 intermolecular recognition site; other site 883005514 dimerization interface [polypeptide binding]; other site 883005515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005516 Response regulator receiver domain; Region: Response_reg; pfam00072 883005517 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 883005518 active site 883005519 phosphorylation site [posttranslational modification] 883005520 intermolecular recognition site; other site 883005521 dimerization interface [polypeptide binding]; other site 883005522 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 883005523 active site 883005524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005525 phosphorylation site [posttranslational modification] 883005526 intermolecular recognition site; other site 883005527 dimerization interface [polypeptide binding]; other site 883005528 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 883005529 dimer interface [polypeptide binding]; other site 883005530 phosphorylation site [posttranslational modification] 883005531 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 883005532 ATP binding site [chemical binding]; other site 883005533 Mg2+ binding site [ion binding]; other site 883005534 G-X-G motif; other site 883005535 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 883005536 acetyl-CoA synthetase; Provisional; Region: PRK00174 883005537 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 883005538 active site 883005539 CoA binding site [chemical binding]; other site 883005540 acyl-activating enzyme (AAE) consensus motif; other site 883005541 AMP binding site [chemical binding]; other site 883005542 acetate binding site [chemical binding]; other site 883005543 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 883005544 CoA binding domain; Region: CoA_binding_2; pfam13380 883005545 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 883005546 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 883005547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 883005548 Coenzyme A binding pocket [chemical binding]; other site 883005549 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 883005550 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 883005551 putative active site [active] 883005552 putative NTP binding site [chemical binding]; other site 883005553 putative nucleic acid binding site [nucleotide binding]; other site 883005554 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 883005555 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 883005556 tetrameric interface [polypeptide binding]; other site 883005557 activator binding site; other site 883005558 NADP binding site [chemical binding]; other site 883005559 substrate binding site [chemical binding]; other site 883005560 catalytic residues [active] 883005561 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 883005562 CheD chemotactic sensory transduction; Region: CheD; cl00810 883005563 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 883005564 IHF - DNA interface [nucleotide binding]; other site 883005565 IHF dimer interface [polypeptide binding]; other site 883005566 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 883005567 Protein of unknown function (DUF523); Region: DUF523; pfam04463 883005568 Uncharacterized conserved protein [Function unknown]; Region: COG3272 883005569 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 883005570 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 883005571 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 883005572 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 883005573 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 883005574 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 883005575 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 883005576 2-isopropylmalate synthase; Validated; Region: PRK00915 883005577 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 883005578 active site 883005579 catalytic residues [active] 883005580 metal binding site [ion binding]; metal-binding site 883005581 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 883005582 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 883005583 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 883005584 substrate binding site [chemical binding]; other site 883005585 ligand binding site [chemical binding]; other site 883005586 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 883005587 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 883005588 substrate binding site [chemical binding]; other site 883005589 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 883005590 tartrate dehydrogenase; Region: TTC; TIGR02089 883005591 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 883005592 S-adenosylmethionine binding site [chemical binding]; other site 883005593 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 883005594 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 883005595 dimer interface [polypeptide binding]; other site 883005596 putative functional site; other site 883005597 putative MPT binding site; other site 883005598 PBP superfamily domain; Region: PBP_like; pfam12727 883005599 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 883005600 Walker A motif; other site 883005601 ATP binding site [chemical binding]; other site 883005602 Walker B motif; other site 883005603 arginine finger; other site 883005604 phage shock protein A; Region: phageshock_pspA; TIGR02977 883005605 Phage shock protein B; Region: PspB; cl05946 883005606 phage shock protein C; Region: phageshock_pspC; TIGR02978 883005607 PspC domain; Region: PspC; pfam04024 883005608 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 883005609 EamA-like transporter family; Region: EamA; pfam00892 883005610 EamA-like transporter family; Region: EamA; pfam00892 883005611 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 883005612 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 883005613 catalytic residues [active] 883005614 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 883005615 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883005616 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 883005617 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 883005618 Zn binding site [ion binding]; other site 883005619 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 883005620 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 883005621 EamA-like transporter family; Region: EamA; pfam00892 883005622 EamA-like transporter family; Region: EamA; pfam00892 883005623 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 883005624 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883005625 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 883005626 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883005627 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 883005628 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 883005629 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 883005630 homodimer interface [polypeptide binding]; other site 883005631 NADP binding site [chemical binding]; other site 883005632 substrate binding site [chemical binding]; other site 883005633 enolase; Provisional; Region: eno; PRK00077 883005634 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 883005635 dimer interface [polypeptide binding]; other site 883005636 metal binding site [ion binding]; metal-binding site 883005637 substrate binding pocket [chemical binding]; other site 883005638 pantothenate kinase; Reviewed; Region: PRK13321 883005639 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 883005640 TPR motif; other site 883005641 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 883005642 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 883005643 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 883005644 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 883005645 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 883005646 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 883005647 FeS/SAM binding site; other site 883005648 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 883005649 ATP cone domain; Region: ATP-cone; pfam03477 883005650 Class III ribonucleotide reductase; Region: RNR_III; cd01675 883005651 effector binding site; other site 883005652 active site 883005653 Zn binding site [ion binding]; other site 883005654 glycine loop; other site 883005655 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 883005656 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 883005657 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 883005658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005659 homodimer interface [polypeptide binding]; other site 883005660 catalytic residue [active] 883005661 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 883005662 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883005663 Zn2+ binding site [ion binding]; other site 883005664 Mg2+ binding site [ion binding]; other site 883005665 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 883005666 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 883005667 Walker A/P-loop; other site 883005668 ATP binding site [chemical binding]; other site 883005669 Q-loop/lid; other site 883005670 ABC transporter signature motif; other site 883005671 Walker B; other site 883005672 D-loop; other site 883005673 H-loop/switch region; other site 883005674 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 883005675 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 883005676 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 883005677 Walker A/P-loop; other site 883005678 ATP binding site [chemical binding]; other site 883005679 Q-loop/lid; other site 883005680 ABC transporter signature motif; other site 883005681 Walker B; other site 883005682 D-loop; other site 883005683 H-loop/switch region; other site 883005684 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883005685 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 883005686 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 883005687 dimer interface [polypeptide binding]; other site 883005688 conserved gate region; other site 883005689 putative PBP binding loops; other site 883005690 ABC-ATPase subunit interface; other site 883005691 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 883005692 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 883005693 dimer interface [polypeptide binding]; other site 883005694 conserved gate region; other site 883005695 putative PBP binding loops; other site 883005696 ABC-ATPase subunit interface; other site 883005697 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 883005698 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 883005699 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 883005700 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 883005701 NeuB family; Region: NeuB; pfam03102 883005702 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 883005703 NeuB binding interface [polypeptide binding]; other site 883005704 putative substrate binding site [chemical binding]; other site 883005705 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 883005706 active site 883005707 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 883005708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 883005709 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 883005710 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 883005711 active site 883005712 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883005713 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 883005714 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883005715 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883005716 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 883005717 active site 883005718 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 883005719 FeS/SAM binding site; other site 883005720 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 883005721 S-adenosylmethionine binding site [chemical binding]; other site 883005722 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 883005723 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 883005724 active site 883005725 metal-binding site 883005726 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 883005727 active site 883005728 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 883005729 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883005730 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 883005731 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 883005732 trimer interface [polypeptide binding]; other site 883005733 active site 883005734 substrate binding site [chemical binding]; other site 883005735 CoA binding site [chemical binding]; other site 883005736 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 883005737 ligand binding site; other site 883005738 tetramer interface; other site 883005739 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 883005740 NeuB family; Region: NeuB; pfam03102 883005741 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 883005742 NeuB binding interface [polypeptide binding]; other site 883005743 putative substrate binding site [chemical binding]; other site 883005744 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 883005745 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 883005746 active site 883005747 homodimer interface [polypeptide binding]; other site 883005748 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u2_5s; cd10971 883005749 putative active site [active] 883005750 putative metal binding site [ion binding]; other site 883005751 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 883005752 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 883005753 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 883005754 FeS/SAM binding site; other site 883005755 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 883005756 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 883005757 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 883005758 S-adenosylmethionine binding site [chemical binding]; other site 883005759 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883005760 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 883005761 active site 883005762 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883005763 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 883005764 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883005765 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 883005766 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883005767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005768 NAD(P) binding site [chemical binding]; other site 883005769 active site 883005770 Methyltransferase domain; Region: Methyltransf_24; pfam13578 883005771 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 883005772 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 883005773 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883005774 putative active site [active] 883005775 heme pocket [chemical binding]; other site 883005776 PAS domain; Region: PAS; smart00091 883005777 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883005778 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 883005779 dimer interface [polypeptide binding]; other site 883005780 phosphorylation site [posttranslational modification] 883005781 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 883005782 ATP binding site [chemical binding]; other site 883005783 Mg2+ binding site [ion binding]; other site 883005784 G-X-G motif; other site 883005785 Response regulator receiver domain; Region: Response_reg; pfam00072 883005786 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 883005787 active site 883005788 phosphorylation site [posttranslational modification] 883005789 intermolecular recognition site; other site 883005790 dimerization interface [polypeptide binding]; other site 883005791 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883005792 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 883005793 active site 883005794 phosphorylation site [posttranslational modification] 883005795 intermolecular recognition site; other site 883005796 dimerization interface [polypeptide binding]; other site 883005797 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 883005798 Walker A motif; other site 883005799 ATP binding site [chemical binding]; other site 883005800 Walker B motif; other site 883005801 arginine finger; other site 883005802 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 883005803 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 883005804 dimer interface [polypeptide binding]; other site 883005805 PYR/PP interface [polypeptide binding]; other site 883005806 TPP binding site [chemical binding]; other site 883005807 substrate binding site [chemical binding]; other site 883005808 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 883005809 Domain of unknown function; Region: EKR; smart00890 883005810 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 883005811 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 883005812 TPP-binding site [chemical binding]; other site 883005813 dimer interface [polypeptide binding]; other site 883005814 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 883005815 L-lactate permease; Region: Lactate_perm; cl00701 883005816 FAD binding domain; Region: FAD_binding_4; pfam01565 883005817 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883005818 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 883005819 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883005820 Cysteine-rich domain; Region: CCG; pfam02754 883005821 Cysteine-rich domain; Region: CCG; pfam02754 883005822 phosphate acetyltransferase; Reviewed; Region: PRK05632 883005823 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 883005824 DRTGG domain; Region: DRTGG; pfam07085 883005825 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 883005826 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 883005827 propionate/acetate kinase; Provisional; Region: PRK12379 883005828 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 883005829 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 883005830 DRTGG domain; Region: DRTGG; pfam07085 883005831 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 883005832 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 883005833 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 883005834 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883005835 Cysteine-rich domain; Region: CCG; pfam02754 883005836 Cysteine-rich domain; Region: CCG; pfam02754 883005837 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 883005838 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883005839 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 883005840 dimerization interface [polypeptide binding]; other site 883005841 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883005842 dimer interface [polypeptide binding]; other site 883005843 putative CheW interface [polypeptide binding]; other site 883005844 Uncharacterized conserved protein [Function unknown]; Region: COG2006 883005845 Domain of unknown function (DUF362); Region: DUF362; pfam04015 883005846 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 883005847 active site residue [active] 883005848 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 883005849 diiron binding motif [ion binding]; other site 883005850 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 883005851 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 883005852 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 883005853 FeS/SAM binding site; other site 883005854 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 883005855 AAA domain; Region: AAA_13; pfam13166 883005856 PAS fold; Region: PAS_3; pfam08447 883005857 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 883005858 dimer interface [polypeptide binding]; other site 883005859 phosphorylation site [posttranslational modification] 883005860 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 883005861 ATP binding site [chemical binding]; other site 883005862 G-X-G motif; other site 883005863 Response regulator receiver domain; Region: Response_reg; pfam00072 883005864 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 883005865 active site 883005866 phosphorylation site [posttranslational modification] 883005867 intermolecular recognition site; other site 883005868 dimerization interface [polypeptide binding]; other site 883005869 Hemerythrin-like domain; Region: Hr-like; cd12108 883005870 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 883005871 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883005872 DNA binding residues [nucleotide binding] 883005873 dimerization interface [polypeptide binding]; other site 883005874 Autotransporter beta-domain; Region: Autotransporter; smart00869 883005875 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883005876 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 883005877 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883005878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883005879 dimer interface [polypeptide binding]; other site 883005880 putative CheW interface [polypeptide binding]; other site 883005881 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 883005882 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 883005883 putative valine binding site [chemical binding]; other site 883005884 dimer interface [polypeptide binding]; other site 883005885 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 883005886 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883005887 PYR/PP interface [polypeptide binding]; other site 883005888 dimer interface [polypeptide binding]; other site 883005889 TPP binding site [chemical binding]; other site 883005890 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 883005891 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 883005892 TPP-binding site [chemical binding]; other site 883005893 dimer interface [polypeptide binding]; other site 883005894 PilZ domain; Region: PilZ; pfam07238 883005895 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 883005896 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 883005897 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883005898 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 883005899 Probable Catalytic site; other site 883005900 metal-binding site 883005901 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 883005902 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 883005903 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 883005904 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 883005905 active site 883005906 NAD binding site [chemical binding]; other site 883005907 metal binding site [ion binding]; metal-binding site 883005908 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 883005909 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 883005910 inhibitor-cofactor binding pocket; inhibition site 883005911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005912 catalytic residue [active] 883005913 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 883005914 active site 883005915 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 883005916 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 883005917 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 883005918 active site 883005919 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 883005920 NeuB family; Region: NeuB; pfam03102 883005921 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 883005922 NeuB binding interface [polypeptide binding]; other site 883005923 putative substrate binding site [chemical binding]; other site 883005924 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 883005925 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 883005926 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 883005927 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 883005928 trimer interface [polypeptide binding]; other site 883005929 active site 883005930 substrate binding site [chemical binding]; other site 883005931 CoA binding site [chemical binding]; other site 883005932 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 883005933 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 883005934 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 883005935 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883005936 extended (e) SDRs; Region: SDR_e; cd08946 883005937 NAD(P) binding site [chemical binding]; other site 883005938 active site 883005939 substrate binding site [chemical binding]; other site 883005940 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 883005941 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 883005942 Ligand binding site; other site 883005943 oligomer interface; other site 883005944 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 883005945 trimer interface [polypeptide binding]; other site 883005946 active site 883005947 substrate binding site [chemical binding]; other site 883005948 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 883005949 CoA binding site [chemical binding]; other site 883005950 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 883005951 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 883005952 putative ligand binding site [chemical binding]; other site 883005953 putative NAD binding site [chemical binding]; other site 883005954 catalytic site [active] 883005955 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 883005956 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 883005957 motif II; other site 883005958 surface carbohydrate biosynthesis protein, LIC13510 family; Region: O_ant_LIC13510; TIGR04326 883005959 hypothetical protein; Provisional; Region: PRK10649 883005960 Sulfatase; Region: Sulfatase; pfam00884 883005961 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 883005962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883005963 catalytic residue [active] 883005964 CHASE4 domain; Region: CHASE4; pfam05228 883005965 PAS domain; Region: PAS; smart00091 883005966 PAS domain; Region: PAS_9; pfam13426 883005967 PAS domain S-box; Region: sensory_box; TIGR00229 883005968 PAS domain; Region: PAS; smart00091 883005969 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883005970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883005971 metal binding site [ion binding]; metal-binding site 883005972 active site 883005973 I-site; other site 883005974 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 883005975 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 883005976 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 883005977 substrate binding site; other site 883005978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005979 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 883005980 NAD(P) binding site [chemical binding]; other site 883005981 active site 883005982 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 883005983 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 883005984 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 883005985 inhibitor-cofactor binding pocket; inhibition site 883005986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005987 catalytic residue [active] 883005988 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883005989 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 883005990 active site 883005991 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 883005992 Uncharacterized conserved protein [Function unknown]; Region: COG4095 883005993 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 883005994 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 883005995 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883005996 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883005997 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 883005998 substrate binding pocket [chemical binding]; other site 883005999 membrane-bound complex binding site; other site 883006000 hinge residues; other site 883006001 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 883006002 dimer interface [polypeptide binding]; other site 883006003 conserved gate region; other site 883006004 putative PBP binding loops; other site 883006005 ABC-ATPase subunit interface; other site 883006006 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883006007 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 883006008 Walker A/P-loop; other site 883006009 ATP binding site [chemical binding]; other site 883006010 Q-loop/lid; other site 883006011 ABC transporter signature motif; other site 883006012 Walker B; other site 883006013 D-loop; other site 883006014 H-loop/switch region; other site 883006015 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 883006016 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 883006017 minor groove reading motif; other site 883006018 helix-hairpin-helix signature motif; other site 883006019 substrate binding pocket [chemical binding]; other site 883006020 active site 883006021 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 883006022 active site 883006023 8-oxo-dGMP binding site [chemical binding]; other site 883006024 nudix motif; other site 883006025 metal binding site [ion binding]; metal-binding site 883006026 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 883006027 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 883006028 Putative Catalytic site; other site 883006029 DXD motif; other site 883006030 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883006031 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 883006032 Walker A/P-loop; other site 883006033 ATP binding site [chemical binding]; other site 883006034 Q-loop/lid; other site 883006035 ABC transporter signature motif; other site 883006036 Walker B; other site 883006037 D-loop; other site 883006038 H-loop/switch region; other site 883006039 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 883006040 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 883006041 active site 883006042 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 883006043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 883006044 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 883006045 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 883006046 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 883006047 active site 883006048 Domain of unknown function (DUF336); Region: DUF336; pfam03928 883006049 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 883006050 DctM-like transporters; Region: DctM; pfam06808 883006051 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 883006052 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 883006053 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 883006054 PAS fold; Region: PAS_4; pfam08448 883006055 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 883006056 putative active site [active] 883006057 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883006058 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 883006059 Walker A motif; other site 883006060 ATP binding site [chemical binding]; other site 883006061 Walker B motif; other site 883006062 arginine finger; other site 883006063 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883006064 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 883006065 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883006066 PYR/PP interface [polypeptide binding]; other site 883006067 dimer interface [polypeptide binding]; other site 883006068 TPP binding site [chemical binding]; other site 883006069 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 883006070 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 883006071 TPP-binding site [chemical binding]; other site 883006072 photolyase PhrII; Region: phr2; TIGR00591 883006073 DNA photolyase; Region: DNA_photolyase; pfam00875 883006074 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883006075 Response regulator receiver domain; Region: Response_reg; pfam00072 883006076 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 883006077 active site 883006078 phosphorylation site [posttranslational modification] 883006079 intermolecular recognition site; other site 883006080 dimerization interface [polypeptide binding]; other site 883006081 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 883006082 DNA polymerase III subunit delta'; Validated; Region: PRK08485 883006083 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 883006084 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 883006085 GDP-binding site [chemical binding]; other site 883006086 ACT binding site; other site 883006087 IMP binding site; other site 883006088 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 883006089 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883006090 catalytic residue [active] 883006091 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 883006092 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 883006093 RNB domain; Region: RNB; pfam00773 883006094 membrane protein; Provisional; Region: PRK14397 883006095 threonine synthase; Validated; Region: PRK06260 883006096 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 883006097 homodimer interface [polypeptide binding]; other site 883006098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006099 catalytic residue [active] 883006100 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 883006101 purine monophosphate binding site [chemical binding]; other site 883006102 dimer interface [polypeptide binding]; other site 883006103 putative catalytic residues [active] 883006104 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 883006105 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 883006106 HflX GTPase family; Region: HflX; cd01878 883006107 G1 box; other site 883006108 GTP/Mg2+ binding site [chemical binding]; other site 883006109 Switch I region; other site 883006110 G2 box; other site 883006111 G3 box; other site 883006112 Switch II region; other site 883006113 G4 box; other site 883006114 G5 box; other site 883006115 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 883006116 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 883006117 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 883006118 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 883006119 active site residue [active] 883006120 EamA-like transporter family; Region: EamA; pfam00892 883006121 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 883006122 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 883006123 DNA binding site [nucleotide binding] 883006124 active site 883006125 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883006126 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 883006127 active site 883006128 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 883006129 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 883006130 ATP binding site [chemical binding]; other site 883006131 substrate interface [chemical binding]; other site 883006132 Ubiquitin-like proteins; Region: UBQ; cl00155 883006133 ThiS family; Region: ThiS; pfam02597 883006134 charged pocket; other site 883006135 hydrophobic patch; other site 883006136 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 883006137 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 883006138 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 883006139 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 883006140 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 883006141 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 883006142 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 883006143 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 883006144 dimer interface [polypeptide binding]; other site 883006145 conserved gate region; other site 883006146 putative PBP binding loops; other site 883006147 ABC-ATPase subunit interface; other site 883006148 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 883006149 dimer interface [polypeptide binding]; other site 883006150 conserved gate region; other site 883006151 putative PBP binding loops; other site 883006152 ABC-ATPase subunit interface; other site 883006153 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 883006154 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 883006155 Walker A/P-loop; other site 883006156 ATP binding site [chemical binding]; other site 883006157 Q-loop/lid; other site 883006158 ABC transporter signature motif; other site 883006159 Walker B; other site 883006160 D-loop; other site 883006161 H-loop/switch region; other site 883006162 TOBE domain; Region: TOBE_2; pfam08402 883006163 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 883006164 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 883006165 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 883006166 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 883006167 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 883006168 NAD(P) binding site [chemical binding]; other site 883006169 shikimate binding site; other site 883006170 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 883006171 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 883006172 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 883006173 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 883006174 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 883006175 homodimer interaction site [polypeptide binding]; other site 883006176 cofactor binding site; other site 883006177 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 883006178 intersubunit interface [polypeptide binding]; other site 883006179 active site 883006180 Zn2+ binding site [ion binding]; other site 883006181 thiamine monophosphate kinase; Provisional; Region: PRK05731 883006182 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 883006183 ATP binding site [chemical binding]; other site 883006184 dimerization interface [polypeptide binding]; other site 883006185 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 883006186 Part of AAA domain; Region: AAA_19; pfam13245 883006187 Family description; Region: UvrD_C_2; pfam13538 883006188 Uncharacterized conserved protein [Function unknown]; Region: COG3379 883006189 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 883006190 active site 1 [active] 883006191 dimer interface [polypeptide binding]; other site 883006192 hexamer interface [polypeptide binding]; other site 883006193 active site 2 [active] 883006194 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 883006195 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 883006196 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 883006197 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 883006198 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 883006199 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 883006200 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 883006201 CRISPR-associated protein Cas4; Region: cas4; TIGR00372 883006202 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 883006203 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 883006204 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 883006205 Cytochrome c; Region: Cytochrom_C; cl11414 883006206 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 883006207 Ferritin-like domain; Region: Ferritin; pfam00210 883006208 heme binding site [chemical binding]; other site 883006209 ferroxidase pore; other site 883006210 ferroxidase diiron center [ion binding]; other site 883006211 PAS domain S-box; Region: sensory_box; TIGR00229 883006212 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883006213 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 883006214 putative active site [active] 883006215 heme pocket [chemical binding]; other site 883006216 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 883006217 dimer interface [polypeptide binding]; other site 883006218 phosphorylation site [posttranslational modification] 883006219 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 883006220 ATP binding site [chemical binding]; other site 883006221 Mg2+ binding site [ion binding]; other site 883006222 G-X-G motif; other site 883006223 Response regulator receiver domain; Region: Response_reg; pfam00072 883006224 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 883006225 active site 883006226 phosphorylation site [posttranslational modification] 883006227 intermolecular recognition site; other site 883006228 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 883006229 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 883006230 Predicted permeases [General function prediction only]; Region: COG0730 883006231 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 883006232 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 883006233 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 883006234 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883006235 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 883006236 Response regulator receiver domain; Region: Response_reg; pfam00072 883006237 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 883006238 active site 883006239 phosphorylation site [posttranslational modification] 883006240 intermolecular recognition site; other site 883006241 dimerization interface [polypeptide binding]; other site 883006242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883006243 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 883006244 dimer interface [polypeptide binding]; other site 883006245 phosphorylation site [posttranslational modification] 883006246 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 883006247 ATP binding site [chemical binding]; other site 883006248 Mg2+ binding site [ion binding]; other site 883006249 G-X-G motif; other site 883006250 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883006251 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883006252 Response regulator receiver domain; Region: Response_reg; pfam00072 883006253 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 883006254 active site 883006255 phosphorylation site [posttranslational modification] 883006256 intermolecular recognition site; other site 883006257 dimerization interface [polypeptide binding]; other site 883006258 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 883006259 phosphorylation site [posttranslational modification] 883006260 dimer interface [polypeptide binding]; other site 883006261 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 883006262 ATP binding site [chemical binding]; other site 883006263 Mg2+ binding site [ion binding]; other site 883006264 G-X-G motif; other site 883006265 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006266 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 883006267 active site 883006268 phosphorylation site [posttranslational modification] 883006269 intermolecular recognition site; other site 883006270 dimerization interface [polypeptide binding]; other site 883006271 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 883006272 Walker A motif; other site 883006273 ATP binding site [chemical binding]; other site 883006274 Walker B motif; other site 883006275 arginine finger; other site 883006276 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883006277 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 883006278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883006279 DNA-binding site [nucleotide binding]; DNA binding site 883006280 UTRA domain; Region: UTRA; pfam07702 883006281 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 883006282 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883006283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883006284 dimer interface [polypeptide binding]; other site 883006285 putative CheW interface [polypeptide binding]; other site 883006286 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 883006287 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 883006288 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 883006289 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 883006290 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 883006291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 883006292 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 883006293 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 883006294 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 883006295 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 883006296 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 883006297 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 883006298 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 883006299 active site 883006300 phosphorylation site [posttranslational modification] 883006301 intermolecular recognition site; other site 883006302 dimerization interface [polypeptide binding]; other site 883006303 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 883006304 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883006305 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 883006306 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 883006307 DNA binding residues [nucleotide binding] 883006308 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 883006309 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 883006310 P-loop; other site 883006311 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 883006312 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 883006313 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 883006314 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 883006315 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 883006316 FHIPEP family; Region: FHIPEP; pfam00771 883006317 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 883006318 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 883006319 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 883006320 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 883006321 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 883006322 Sulfate transporter family; Region: Sulfate_transp; pfam00916 883006323 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 883006324 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 883006325 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 883006326 FMN binding site [chemical binding]; other site 883006327 active site 883006328 catalytic residues [active] 883006329 substrate binding site [chemical binding]; other site 883006330 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 883006331 LytB protein; Region: LYTB; cl00507 883006332 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 883006333 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 883006334 Response regulator receiver domain; Region: Response_reg; pfam00072 883006335 active site 883006336 phosphorylation site [posttranslational modification] 883006337 intermolecular recognition site; other site 883006338 dimerization interface [polypeptide binding]; other site 883006339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883006340 DNA-binding site [nucleotide binding]; DNA binding site 883006341 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 883006342 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 883006343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006344 homodimer interface [polypeptide binding]; other site 883006345 catalytic residue [active] 883006346 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 883006347 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 883006348 RNA binding surface [nucleotide binding]; other site 883006349 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 883006350 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 883006351 active site 883006352 Family description; Region: VCBS; pfam13517 883006353 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 883006354 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 883006355 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 883006356 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 883006357 active site 883006358 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 883006359 NlpC/P60 family; Region: NLPC_P60; pfam00877 883006360 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 883006361 IHF - DNA interface [nucleotide binding]; other site 883006362 IHF dimer interface [polypeptide binding]; other site 883006363 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883006364 DNA binding residues [nucleotide binding] 883006365 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 883006366 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 883006367 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 883006368 active site 883006369 dimer interface [polypeptide binding]; other site 883006370 effector binding site; other site 883006371 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 883006372 TSCPD domain; Region: TSCPD; pfam12637 883006373 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 883006374 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883006375 Walker A/P-loop; other site 883006376 ATP binding site [chemical binding]; other site 883006377 Q-loop/lid; other site 883006378 ABC transporter signature motif; other site 883006379 Walker B; other site 883006380 D-loop; other site 883006381 H-loop/switch region; other site 883006382 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 883006383 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 883006384 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 883006385 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 883006386 THF binding site; other site 883006387 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 883006388 substrate binding site [chemical binding]; other site 883006389 THF binding site; other site 883006390 zinc-binding site [ion binding]; other site 883006391 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 883006392 S-adenosylmethionine binding site [chemical binding]; other site 883006393 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 883006394 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 883006395 dimer interface [polypeptide binding]; other site 883006396 motif 1; other site 883006397 active site 883006398 motif 2; other site 883006399 motif 3; other site 883006400 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 883006401 anticodon binding site; other site 883006402 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 883006403 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 883006404 dimer interface [polypeptide binding]; other site 883006405 anticodon binding site; other site 883006406 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 883006407 homodimer interface [polypeptide binding]; other site 883006408 motif 1; other site 883006409 active site 883006410 motif 2; other site 883006411 GAD domain; Region: GAD; pfam02938 883006412 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 883006413 motif 3; other site 883006414 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 883006415 active site 883006416 catalytic residues [active] 883006417 metal binding site [ion binding]; metal-binding site 883006418 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 883006419 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 883006420 putative active site [active] 883006421 substrate binding site [chemical binding]; other site 883006422 putative cosubstrate binding site; other site 883006423 catalytic site [active] 883006424 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 883006425 substrate binding site [chemical binding]; other site 883006426 Protein of unknown function DUF116; Region: DUF116; pfam01976 883006427 NusB family; Region: NusB; pfam01029 883006428 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 883006429 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 883006430 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 883006431 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 883006432 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 883006433 putative ribose interaction site [chemical binding]; other site 883006434 putative ADP binding site [chemical binding]; other site 883006435 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 883006436 ParB-like nuclease domain; Region: ParB; smart00470 883006437 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 883006438 non-specific DNA binding site [nucleotide binding]; other site 883006439 salt bridge; other site 883006440 sequence-specific DNA binding site [nucleotide binding]; other site 883006441 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 883006442 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 883006443 P-loop; other site 883006444 Magnesium ion binding site [ion binding]; other site 883006445 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 883006446 Magnesium ion binding site [ion binding]; other site 883006447 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883006448 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 883006449 putative NAD(P) binding site [chemical binding]; other site 883006450 active site 883006451 putative substrate binding site [chemical binding]; other site 883006452 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 883006453 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 883006454 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 883006455 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 883006456 Flavoprotein; Region: Flavoprotein; pfam02441 883006457 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 883006458 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 883006459 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 883006460 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883006461 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 883006462 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 883006463 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 883006464 dimer interface [polypeptide binding]; other site 883006465 PYR/PP interface [polypeptide binding]; other site 883006466 TPP binding site [chemical binding]; other site 883006467 substrate binding site [chemical binding]; other site 883006468 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 883006469 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 883006470 TPP-binding site [chemical binding]; other site 883006471 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 883006472 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 883006473 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 883006474 Part of AAA domain; Region: AAA_19; pfam13245 883006475 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 883006476 AAA domain; Region: AAA_12; pfam13087 883006477 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 883006478 putative active site [active] 883006479 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 883006480 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 883006481 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 883006482 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883006483 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883006484 Walker A/P-loop; other site 883006485 ATP binding site [chemical binding]; other site 883006486 Q-loop/lid; other site 883006487 ABC transporter signature motif; other site 883006488 Walker B; other site 883006489 D-loop; other site 883006490 H-loop/switch region; other site 883006491 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883006492 FtsX-like permease family; Region: FtsX; pfam02687 883006493 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 883006494 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 883006495 putative deacylase active site [active] 883006496 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 883006497 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883006498 Peptidase family M48; Region: Peptidase_M48; pfam01435 883006499 DNA topoisomerase I; Validated; Region: PRK06599 883006500 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 883006501 active site 883006502 interdomain interaction site; other site 883006503 putative metal-binding site [ion binding]; other site 883006504 nucleotide binding site [chemical binding]; other site 883006505 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 883006506 domain I; other site 883006507 DNA binding groove [nucleotide binding] 883006508 phosphate binding site [ion binding]; other site 883006509 domain II; other site 883006510 domain III; other site 883006511 nucleotide binding site [chemical binding]; other site 883006512 catalytic site [active] 883006513 domain IV; other site 883006514 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 883006515 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 883006516 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 883006517 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 883006518 Nuclear pore component; Region: Nup88; pfam10168 883006519 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 883006520 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 883006521 active site 883006522 fumarate hydratase; Reviewed; Region: fumC; PRK00485 883006523 Class II fumarases; Region: Fumarase_classII; cd01362 883006524 active site 883006525 tetramer interface [polypeptide binding]; other site 883006526 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 883006527 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 883006528 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883006529 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 883006530 catalytic residues [active] 883006531 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 883006532 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 883006533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 883006534 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 883006535 substrate binding site [chemical binding]; other site 883006536 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 883006537 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 883006538 putative NAD(P) binding site [chemical binding]; other site 883006539 putative active site [active] 883006540 putative peptidase; Provisional; Region: PRK11649 883006541 Peptidase family M23; Region: Peptidase_M23; pfam01551 883006542 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 883006543 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 883006544 Walker A motif; other site 883006545 ATP binding site [chemical binding]; other site 883006546 Walker B motif; other site 883006547 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 883006548 arginine finger; other site 883006549 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 883006550 DnaA box-binding interface [nucleotide binding]; other site 883006551 DNA polymerase III subunit beta; Provisional; Region: PRK14947 883006552 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 883006553 putative DNA binding surface [nucleotide binding]; other site 883006554 dimer interface [polypeptide binding]; other site 883006555 beta-clamp/clamp loader binding surface; other site 883006556 beta-clamp/translesion DNA polymerase binding surface; other site 883006557 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 883006558 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 883006559 ATP binding site [chemical binding]; other site 883006560 Mg2+ binding site [ion binding]; other site 883006561 G-X-G motif; other site 883006562 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 883006563 anchoring element; other site 883006564 dimer interface [polypeptide binding]; other site 883006565 ATP binding site [chemical binding]; other site 883006566 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 883006567 active site 883006568 putative metal-binding site [ion binding]; other site 883006569 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 883006570 DNA gyrase subunit A; Validated; Region: PRK05560 883006571 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 883006572 CAP-like domain; other site 883006573 active site 883006574 primary dimer interface [polypeptide binding]; other site 883006575 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006576 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006577 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006578 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006579 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006580 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006581 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883006582 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 883006583 Ligand Binding Site [chemical binding]; other site 883006584 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 883006585 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 883006586 putative dimer interface [polypeptide binding]; other site 883006587 putative anticodon binding site; other site 883006588 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 883006589 homodimer interface [polypeptide binding]; other site 883006590 motif 1; other site 883006591 motif 2; other site 883006592 active site 883006593 motif 3; other site 883006594 MarR family; Region: MarR_2; cl17246 883006595 Rubrerythrin [Energy production and conversion]; Region: COG1592 883006596 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 883006597 binuclear metal center [ion binding]; other site 883006598 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 883006599 iron binding site [ion binding]; other site 883006600 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 883006601 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 883006602 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883006603 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883006604 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 883006605 phosphorylation site [posttranslational modification] 883006606 dimer interface [polypeptide binding]; other site 883006607 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 883006608 ATP binding site [chemical binding]; other site 883006609 Mg2+ binding site [ion binding]; other site 883006610 G-X-G motif; other site 883006611 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006612 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 883006613 active site 883006614 phosphorylation site [posttranslational modification] 883006615 intermolecular recognition site; other site 883006616 dimerization interface [polypeptide binding]; other site 883006617 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 883006618 Walker A motif; other site 883006619 ATP binding site [chemical binding]; other site 883006620 Walker B motif; other site 883006621 arginine finger; other site 883006622 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883006623 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 883006624 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 883006625 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 883006626 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883006627 putative substrate translocation pore; other site 883006628 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 883006629 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 883006630 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 883006631 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 883006632 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 883006633 enterobactin exporter EntS; Provisional; Region: PRK10489 883006634 putative substrate translocation pore; other site 883006635 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 883006636 Ligand Binding Site [chemical binding]; other site 883006637 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 883006638 Ligand Binding Site [chemical binding]; other site 883006639 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883006640 Response regulator receiver domain; Region: Response_reg; pfam00072 883006641 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 883006642 active site 883006643 phosphorylation site [posttranslational modification] 883006644 intermolecular recognition site; other site 883006645 dimerization interface [polypeptide binding]; other site 883006646 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 883006647 Walker A motif; other site 883006648 ATP binding site [chemical binding]; other site 883006649 Walker B motif; other site 883006650 arginine finger; other site 883006651 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883006652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883006653 HAMP domain; Region: HAMP; pfam00672 883006654 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 883006655 dimer interface [polypeptide binding]; other site 883006656 phosphorylation site [posttranslational modification] 883006657 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 883006658 ATP binding site [chemical binding]; other site 883006659 G-X-G motif; other site 883006660 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006661 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 883006662 active site 883006663 phosphorylation site [posttranslational modification] 883006664 intermolecular recognition site; other site 883006665 dimerization interface [polypeptide binding]; other site 883006666 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 883006667 Walker A motif; other site 883006668 ATP binding site [chemical binding]; other site 883006669 Walker B motif; other site 883006670 arginine finger; other site 883006671 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883006672 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 883006673 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 883006674 Walker A/P-loop; other site 883006675 ATP binding site [chemical binding]; other site 883006676 Q-loop/lid; other site 883006677 ABC transporter signature motif; other site 883006678 Walker B; other site 883006679 D-loop; other site 883006680 H-loop/switch region; other site 883006681 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883006682 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 883006683 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 883006684 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 883006685 TPR repeat; Region: TPR_11; pfam13414 883006686 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 883006687 binding surface 883006688 TPR motif; other site 883006689 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 883006690 TPR repeat; Region: TPR_11; pfam13414 883006691 binding surface 883006692 TPR motif; other site 883006693 Flagellin N-methylase; Region: FliB; cl00497 883006694 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883006695 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 883006696 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 883006697 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 883006698 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 883006699 protein binding site [polypeptide binding]; other site 883006700 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 883006701 protein binding site [polypeptide binding]; other site 883006702 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 883006703 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 883006704 putative dimer interface [polypeptide binding]; other site 883006705 active site pocket [active] 883006706 putative cataytic base [active] 883006707 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 883006708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883006709 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 883006710 putative dimerization interface [polypeptide binding]; other site 883006711 Lysine efflux permease [General function prediction only]; Region: COG1279 883006712 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 883006713 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 883006714 ATP binding site [chemical binding]; other site 883006715 Mg++ binding site [ion binding]; other site 883006716 motif III; other site 883006717 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 883006718 nucleotide binding region [chemical binding]; other site 883006719 ATP-binding site [chemical binding]; other site 883006720 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 883006721 RNA binding site [nucleotide binding]; other site 883006722 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 883006723 GIY-YIG motif/motif A; other site 883006724 putative active site [active] 883006725 putative metal binding site [ion binding]; other site 883006726 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 883006727 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883006728 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 883006729 Flavoprotein; Region: Flavoprotein; pfam02441 883006730 L-lactate permease; Region: Lactate_perm; cl00701 883006731 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 883006732 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883006733 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 883006734 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 883006735 rRNA binding site [nucleotide binding]; other site 883006736 predicted 30S ribosome binding site; other site 883006737 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 883006738 dimerization interface [polypeptide binding]; other site 883006739 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883006740 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 883006741 putative active site [active] 883006742 heme pocket [chemical binding]; other site 883006743 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 883006744 dimer interface [polypeptide binding]; other site 883006745 phosphorylation site [posttranslational modification] 883006746 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 883006747 ATP binding site [chemical binding]; other site 883006748 Mg2+ binding site [ion binding]; other site 883006749 G-X-G motif; other site 883006750 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 883006751 Helix-turn-helix domain; Region: HTH_17; pfam12728 883006752 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 883006753 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 883006754 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 883006755 DctM-like transporters; Region: DctM; pfam06808 883006756 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 883006757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883006758 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 883006759 dimerization interface [polypeptide binding]; other site 883006760 substrate binding pocket [chemical binding]; other site 883006761 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 883006762 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 883006763 Peptidase family U32; Region: Peptidase_U32; pfam01136 883006764 Peptidase family U32; Region: Peptidase_U32; cl03113 883006765 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 883006766 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 883006767 FAD binding pocket [chemical binding]; other site 883006768 FAD binding motif [chemical binding]; other site 883006769 phosphate binding motif [ion binding]; other site 883006770 beta-alpha-beta structure motif; other site 883006771 NAD binding pocket [chemical binding]; other site 883006772 Iron coordination center [ion binding]; other site 883006773 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 883006774 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 883006775 heterodimer interface [polypeptide binding]; other site 883006776 active site 883006777 FMN binding site [chemical binding]; other site 883006778 homodimer interface [polypeptide binding]; other site 883006779 substrate binding site [chemical binding]; other site 883006780 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 883006781 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 883006782 Proline dehydrogenase; Region: Pro_dh; cl03282 883006783 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 883006784 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 883006785 Glutamate binding site [chemical binding]; other site 883006786 homodimer interface [polypeptide binding]; other site 883006787 NAD binding site [chemical binding]; other site 883006788 catalytic residues [active] 883006789 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 883006790 dimer interface [polypeptide binding]; other site 883006791 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 883006792 dimer interface [polypeptide binding]; other site 883006793 phosphorylation site [posttranslational modification] 883006794 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 883006795 ATP binding site [chemical binding]; other site 883006796 Mg2+ binding site [ion binding]; other site 883006797 G-X-G motif; other site 883006798 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006799 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 883006800 active site 883006801 phosphorylation site [posttranslational modification] 883006802 intermolecular recognition site; other site 883006803 dimerization interface [polypeptide binding]; other site 883006804 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 883006805 Walker A motif; other site 883006806 ATP binding site [chemical binding]; other site 883006807 Walker B motif; other site 883006808 arginine finger; other site 883006809 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883006810 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 883006811 active site 883006812 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883006813 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 883006814 CoenzymeA binding site [chemical binding]; other site 883006815 subunit interaction site [polypeptide binding]; other site 883006816 PHB binding site; other site 883006817 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 883006818 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 883006819 putative active site [active] 883006820 heme pocket [chemical binding]; other site 883006821 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 883006822 Walker A motif; other site 883006823 ATP binding site [chemical binding]; other site 883006824 Walker B motif; other site 883006825 arginine finger; other site 883006826 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 883006827 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 883006828 hexamer interface [polypeptide binding]; other site 883006829 ligand binding site [chemical binding]; other site 883006830 putative active site [active] 883006831 NAD(P) binding site [chemical binding]; other site 883006832 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 883006833 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 883006834 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 883006835 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883006836 Walker A/P-loop; other site 883006837 ATP binding site [chemical binding]; other site 883006838 Q-loop/lid; other site 883006839 ABC transporter signature motif; other site 883006840 Walker B; other site 883006841 D-loop; other site 883006842 H-loop/switch region; other site 883006843 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 883006844 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 883006845 Walker A/P-loop; other site 883006846 ATP binding site [chemical binding]; other site 883006847 Q-loop/lid; other site 883006848 ABC transporter signature motif; other site 883006849 Walker B; other site 883006850 D-loop; other site 883006851 H-loop/switch region; other site 883006852 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 883006853 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 883006854 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 883006855 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 883006856 HlyD family secretion protein; Region: HlyD_3; pfam13437 883006857 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883006858 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 883006859 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883006860 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 883006861 MarR family; Region: MarR; pfam01047 883006862 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883006863 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 883006864 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883006865 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883006866 HlyD family secretion protein; Region: HlyD_3; pfam13437 883006867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883006868 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883006869 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 883006870 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 883006871 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 883006872 MarR family; Region: MarR_2; pfam12802 883006873 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883006874 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 883006875 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 883006876 putative acyl-acceptor binding pocket; other site 883006877 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 883006878 Protein of unknown function (DUF523); Region: DUF523; pfam04463 883006879 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883006880 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 883006881 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 883006882 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 883006883 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 883006884 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883006885 DNA-binding site [nucleotide binding]; DNA binding site 883006886 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 883006887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006888 homodimer interface [polypeptide binding]; other site 883006889 catalytic residue [active] 883006890 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 883006891 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 883006892 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 883006893 MarR family; Region: MarR_2; pfam12802 883006894 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 883006895 dimer interface [polypeptide binding]; other site 883006896 putative tRNA-binding site [nucleotide binding]; other site 883006897 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 883006898 S-adenosylmethionine binding site [chemical binding]; other site 883006899 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 883006900 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883006901 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 883006902 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883006903 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 883006904 putative dimer interface [polypeptide binding]; other site 883006905 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883006906 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 883006907 dimerization interface [polypeptide binding]; other site 883006908 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883006909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883006910 dimer interface [polypeptide binding]; other site 883006911 putative CheW interface [polypeptide binding]; other site 883006912 malate synthase G; Provisional; Region: PRK02999 883006913 active site 883006914 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 883006915 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 883006916 potential catalytic triad [active] 883006917 conserved cys residue [active] 883006918 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 883006919 active site 883006920 catalytic residues [active] 883006921 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883006922 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883006923 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 883006924 active site 883006925 phosphorylation site [posttranslational modification] 883006926 intermolecular recognition site; other site 883006927 dimerization interface [polypeptide binding]; other site 883006928 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883006929 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 883006930 putative active site [active] 883006931 heme pocket [chemical binding]; other site 883006932 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 883006933 dimer interface [polypeptide binding]; other site 883006934 phosphorylation site [posttranslational modification] 883006935 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 883006936 ATP binding site [chemical binding]; other site 883006937 Mg2+ binding site [ion binding]; other site 883006938 G-X-G motif; other site 883006939 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883006940 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883006941 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 883006942 Predicted permease; Region: DUF318; cl17795 883006943 Predicted permease; Region: DUF318; cl17795 883006944 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 883006945 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 883006946 FAD binding domain; Region: FAD_binding_4; pfam01565 883006947 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883006948 Protein of unknown function (DUF805); Region: DUF805; pfam05656 883006949 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 883006950 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 883006951 ATP binding site [chemical binding]; other site 883006952 putative Mg++ binding site [ion binding]; other site 883006953 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 883006954 nucleotide binding region [chemical binding]; other site 883006955 ATP-binding site [chemical binding]; other site 883006956 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 883006957 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 883006958 active site 883006959 substrate binding site [chemical binding]; other site 883006960 catalytic site [active] 883006961 amphi-Trp domain; Region: amphi-Trp; TIGR04354 883006962 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006963 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 883006964 active site 883006965 phosphorylation site [posttranslational modification] 883006966 intermolecular recognition site; other site 883006967 dimerization interface [polypeptide binding]; other site 883006968 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 883006969 Walker A motif; other site 883006970 ATP binding site [chemical binding]; other site 883006971 Walker B motif; other site 883006972 arginine finger; other site 883006973 sensor protein ZraS; Provisional; Region: PRK10364 883006974 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 883006975 dimer interface [polypeptide binding]; other site 883006976 phosphorylation site [posttranslational modification] 883006977 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 883006978 ATP binding site [chemical binding]; other site 883006979 Mg2+ binding site [ion binding]; other site 883006980 G-X-G motif; other site 883006981 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 883006982 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 883006983 active site 883006984 dimer interface [polypeptide binding]; other site 883006985 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 883006986 dimer interface [polypeptide binding]; other site 883006987 active site 883006988 aspartate aminotransferase; Provisional; Region: PRK05764 883006989 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 883006990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006991 homodimer interface [polypeptide binding]; other site 883006992 catalytic residue [active] 883006993 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 883006994 GTPase Era; Reviewed; Region: era; PRK00089 883006995 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 883006996 G1 box; other site 883006997 GTP/Mg2+ binding site [chemical binding]; other site 883006998 Switch I region; other site 883006999 G2 box; other site 883007000 Switch II region; other site 883007001 G3 box; other site 883007002 G4 box; other site 883007003 G5 box; other site 883007004 KH domain; Region: KH_2; pfam07650 883007005 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 883007006 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883007007 catalytic residue [active] 883007008 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883007009 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883007010 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883007011 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 883007012 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883007013 ligand binding site [chemical binding]; other site 883007014 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883007015 ligand binding site [chemical binding]; other site 883007016 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 883007017 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 883007018 flagellar motor switch protein; Validated; Region: fliN; PRK05698 883007019 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 883007020 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 883007021 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 883007022 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 883007023 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 883007024 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 883007025 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 883007026 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883007027 catalytic residue [active] 883007028 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 883007029 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 883007030 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 883007031 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 883007032 Catalytic site; other site 883007033 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 883007034 active site 883007035 catalytic triad [active] 883007036 oxyanion hole [active] 883007037 switch loop; other site 883007038 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 883007039 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883007040 Walker A/P-loop; other site 883007041 ATP binding site [chemical binding]; other site 883007042 Q-loop/lid; other site 883007043 ABC transporter signature motif; other site 883007044 Walker B; other site 883007045 D-loop; other site 883007046 H-loop/switch region; other site 883007047 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 883007048 FtsX-like permease family; Region: FtsX; pfam02687 883007049 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 883007050 seryl-tRNA synthetase; Provisional; Region: PRK05431 883007051 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 883007052 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 883007053 dimer interface [polypeptide binding]; other site 883007054 active site 883007055 motif 1; other site 883007056 motif 2; other site 883007057 motif 3; other site 883007058 PilZ domain; Region: PilZ; pfam07238 883007059 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 883007060 hypothetical protein; Provisional; Region: PRK01617 883007061 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 883007062 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 883007063 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 883007064 active site 883007065 Domain of unknown function (DUF309); Region: DUF309; pfam03745 883007066 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 883007067 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 883007068 ACS interaction site; other site 883007069 CODH interaction site; other site 883007070 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 883007071 cubane metal cluster (B-cluster) [ion binding]; other site 883007072 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 883007073 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 883007074 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 883007075 ligand binding site [chemical binding]; other site 883007076 flexible hinge region; other site 883007077 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 883007078 non-specific DNA interactions [nucleotide binding]; other site 883007079 DNA binding site [nucleotide binding] 883007080 sequence specific DNA binding site [nucleotide binding]; other site 883007081 putative cAMP binding site [chemical binding]; other site 883007082 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 883007083 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 883007084 Isochorismatase family; Region: Isochorismatase; pfam00857 883007085 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 883007086 catalytic triad [active] 883007087 conserved cis-peptide bond; other site 883007088 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 883007089 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 883007090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883007091 catalytic residue [active] 883007092 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 883007093 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 883007094 Benzoate membrane transport protein; Region: BenE; pfam03594 883007095 benzoate transporter; Region: benE; TIGR00843 883007096 HDOD domain; Region: HDOD; pfam08668 883007097 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 883007098 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883007099 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 883007100 acyl-activating enzyme (AAE) consensus motif; other site 883007101 putative AMP binding site [chemical binding]; other site 883007102 putative active site [active] 883007103 putative CoA binding site [chemical binding]; other site 883007104 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 883007105 Methyltransferase domain; Region: Methyltransf_31; pfam13847 883007106 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 883007107 S-adenosylmethionine binding site [chemical binding]; other site 883007108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 883007109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883007110 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; cl11398 883007111 dimerization interface [polypeptide binding]; other site 883007112 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 883007113 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 883007114 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 883007115 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 883007116 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 883007117 P loop; other site 883007118 GTP binding site [chemical binding]; other site 883007119 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883007120 HAMP domain; Region: HAMP; pfam00672 883007121 dimerization interface [polypeptide binding]; other site 883007122 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 883007123 PAS fold; Region: PAS_3; pfam08447 883007124 putative active site [active] 883007125 heme pocket [chemical binding]; other site 883007126 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883007127 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 883007128 putative active site [active] 883007129 heme pocket [chemical binding]; other site 883007130 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 883007131 dimer interface [polypeptide binding]; other site 883007132 phosphorylation site [posttranslational modification] 883007133 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 883007134 ATP binding site [chemical binding]; other site 883007135 Mg2+ binding site [ion binding]; other site 883007136 G-X-G motif; other site 883007137 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 883007138 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 883007139 DEAD-like helicases superfamily; Region: DEXDc; smart00487 883007140 ATP binding site [chemical binding]; other site 883007141 Mg++ binding site [ion binding]; other site 883007142 motif III; other site 883007143 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 883007144 nucleotide binding region [chemical binding]; other site 883007145 ATP-binding site [chemical binding]; other site 883007146 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 883007147 Precorrin-8X methylmutase; Region: CbiC; pfam02570 883007148 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 883007149 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 883007150 catalytic triad [active] 883007151 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 883007152 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883007153 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 883007154 dimerization interface [polypeptide binding]; other site 883007155 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883007156 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883007157 dimer interface [polypeptide binding]; other site 883007158 putative CheW interface [polypeptide binding]; other site 883007159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 883007160 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 883007161 Walker A/P-loop; other site 883007162 ATP binding site [chemical binding]; other site 883007163 Q-loop/lid; other site 883007164 ABC transporter signature motif; other site 883007165 Walker B; other site 883007166 D-loop; other site 883007167 H-loop/switch region; other site 883007168 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 883007169 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 883007170 GTP-binding protein Der; Reviewed; Region: PRK00093 883007171 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 883007172 G1 box; other site 883007173 GTP/Mg2+ binding site [chemical binding]; other site 883007174 Switch I region; other site 883007175 G2 box; other site 883007176 Switch II region; other site 883007177 G3 box; other site 883007178 G4 box; other site 883007179 G5 box; other site 883007180 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 883007181 G1 box; other site 883007182 GTP/Mg2+ binding site [chemical binding]; other site 883007183 Switch I region; other site 883007184 G2 box; other site 883007185 G3 box; other site 883007186 Switch II region; other site 883007187 G4 box; other site 883007188 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 883007189 G5 box; other site 883007190 G4 box; other site 883007191 G5 box; other site 883007192 Helix-turn-helix domain; Region: HTH_17; pfam12728 883007193 PBP superfamily domain; Region: PBP_like; pfam12727 883007194 MarR family; Region: MarR; pfam01047 883007195 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 883007196 active site 883007197 Zn binding site [ion binding]; other site 883007198 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 883007199 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 883007200 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 883007201 homodimer interface [polypeptide binding]; other site 883007202 substrate-cofactor binding pocket; other site 883007203 catalytic residue [active] 883007204 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 883007205 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 883007206 Walker A motif; other site 883007207 ATP binding site [chemical binding]; other site 883007208 Walker B motif; other site 883007209 arginine finger; other site 883007210 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 883007211 hypothetical protein; Validated; Region: PRK00153 883007212 recombination protein RecR; Reviewed; Region: recR; PRK00076 883007213 RecR protein; Region: RecR; pfam02132 883007214 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 883007215 putative active site [active] 883007216 putative metal-binding site [ion binding]; other site 883007217 tetramer interface [polypeptide binding]; other site 883007218 HEAT-like repeat; Region: HEAT_EZ; pfam13513 883007219 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 883007220 dimerization interface [polypeptide binding]; other site 883007221 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 883007222 PAS domain; Region: PAS_9; pfam13426 883007223 putative active site [active] 883007224 heme pocket [chemical binding]; other site 883007225 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 883007226 dimer interface [polypeptide binding]; other site 883007227 phosphorylation site [posttranslational modification] 883007228 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 883007229 ATP binding site [chemical binding]; other site 883007230 Mg2+ binding site [ion binding]; other site 883007231 G-X-G motif; other site 883007232 Response regulator receiver domain; Region: Response_reg; pfam00072 883007233 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 883007234 active site 883007235 phosphorylation site [posttranslational modification] 883007236 intermolecular recognition site; other site 883007237 dimerization interface [polypeptide binding]; other site 883007238 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 883007239 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 883007240 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 883007241 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 883007242 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 883007243 dimerization interface [polypeptide binding]; other site 883007244 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 883007245 ATP binding site [chemical binding]; other site 883007246 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 883007247 putative ADP-binding pocket [chemical binding]; other site 883007248 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883007249 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 883007250 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 883007251 NAD binding site [chemical binding]; other site 883007252 substrate binding site [chemical binding]; other site 883007253 homodimer interface [polypeptide binding]; other site 883007254 active site 883007255 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 883007256 dimerization interface [polypeptide binding]; other site 883007257 putative DNA binding site [nucleotide binding]; other site 883007258 putative Zn2+ binding site [ion binding]; other site 883007259 Predicted permeases [General function prediction only]; Region: COG0701 883007260 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 883007261 binding surface 883007262 TPR motif; other site 883007263 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 883007264 binding surface 883007265 TPR motif; other site 883007266 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 883007267 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 883007268 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 883007269 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883007270 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883007271 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 883007272 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 883007273 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 883007274 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 883007275 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 883007276 MgtE intracellular N domain; Region: MgtE_N; cl15244 883007277 FliG C-terminal domain; Region: FliG_C; pfam01706 883007278 Flagellar assembly protein FliH; Region: FliH; pfam02108 883007279 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 883007280 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 883007281 Walker A motif/ATP binding site; other site 883007282 Walker B motif; other site 883007283 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 883007284 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 883007285 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 883007286 Peptidase family M23; Region: Peptidase_M23; pfam01551 883007287 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 883007288 Ligand Binding Site [chemical binding]; other site 883007289 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 883007290 chaperone protein DnaJ; Provisional; Region: PRK14301 883007291 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 883007292 HSP70 interaction site [polypeptide binding]; other site 883007293 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 883007294 substrate binding site [polypeptide binding]; other site 883007295 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 883007296 Zn binding sites [ion binding]; other site 883007297 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 883007298 dimer interface [polypeptide binding]; other site 883007299 hypothetical protein; Provisional; Region: PRK04164 883007300 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 883007301 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 883007302 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 883007303 dimerization interface [polypeptide binding]; other site 883007304 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 883007305 PAS domain; Region: PAS_9; pfam13426 883007306 putative active site [active] 883007307 heme pocket [chemical binding]; other site 883007308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883007309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007310 metal binding site [ion binding]; metal-binding site 883007311 active site 883007312 I-site; other site 883007313 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 883007314 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 883007315 trimer interface [polypeptide binding]; other site 883007316 dimer interface [polypeptide binding]; other site 883007317 putative active site [active] 883007318 hypothetical protein; Validated; Region: PRK06201 883007319 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 883007320 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 883007321 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 883007322 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 883007323 substrate binding site [chemical binding]; other site 883007324 glutamase interaction surface [polypeptide binding]; other site 883007325 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 883007326 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 883007327 putative active site [active] 883007328 oxyanion strand; other site 883007329 catalytic triad [active] 883007330 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 883007331 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883007332 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 883007333 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 883007334 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883007335 ATP-grasp domain; Region: ATP-grasp_4; cl17255 883007336 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 883007337 IMP binding site; other site 883007338 dimer interface [polypeptide binding]; other site 883007339 interdomain contacts; other site 883007340 partial ornithine binding site; other site 883007341 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 883007342 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 883007343 active site 883007344 tetramer interface [polypeptide binding]; other site 883007345 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883007346 active site 883007347 KpsF/GutQ family protein; Region: kpsF; TIGR00393 883007348 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 883007349 putative active site [active] 883007350 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 883007351 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 883007352 Predicted GTPase [General function prediction only]; Region: COG2403 883007353 Uncharacterized conserved protein [Function unknown]; Region: COG4717 883007354 Uncharacterized conserved protein [Function unknown]; Region: COG4717 883007355 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 883007356 active site 883007357 metal binding site [ion binding]; metal-binding site 883007358 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 883007359 active site 883007360 DNA polymerase IV; Validated; Region: PRK02406 883007361 DNA binding site [nucleotide binding] 883007362 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 883007363 homodimer interface [polypeptide binding]; other site 883007364 substrate-cofactor binding pocket; other site 883007365 Aminotransferase class IV; Region: Aminotran_4; pfam01063 883007366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883007367 catalytic residue [active] 883007368 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 883007369 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 883007370 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883007371 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883007372 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 883007373 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 883007374 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 883007375 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 883007376 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 883007377 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 883007378 active site 883007379 metal binding site [ion binding]; metal-binding site 883007380 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 883007381 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 883007382 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 883007383 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 883007384 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 883007385 putative catalytic cysteine [active] 883007386 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 883007387 putative active site [active] 883007388 metal binding site [ion binding]; metal-binding site 883007389 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 883007390 PAS fold; Region: PAS_3; pfam08447 883007391 putative active site [active] 883007392 heme pocket [chemical binding]; other site 883007393 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 883007394 PAS domain; Region: PAS_9; pfam13426 883007395 putative active site [active] 883007396 heme pocket [chemical binding]; other site 883007397 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 883007398 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 883007399 dimer interface [polypeptide binding]; other site 883007400 phosphorylation site [posttranslational modification] 883007401 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 883007402 ATP binding site [chemical binding]; other site 883007403 Mg2+ binding site [ion binding]; other site 883007404 G-X-G motif; other site 883007405 Response regulator receiver domain; Region: Response_reg; pfam00072 883007406 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 883007407 active site 883007408 phosphorylation site [posttranslational modification] 883007409 intermolecular recognition site; other site 883007410 dimerization interface [polypeptide binding]; other site 883007411 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883007412 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 883007413 substrate binding pocket [chemical binding]; other site 883007414 membrane-bound complex binding site; other site 883007415 hinge residues; other site 883007416 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 883007417 TPR motif; other site 883007418 binding surface 883007419 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 883007420 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 883007421 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 883007422 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 883007423 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 883007424 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 883007425 active site 883007426 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 883007427 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 883007428 Ligand Binding Site [chemical binding]; other site 883007429 TIGR00269 family protein; Region: TIGR00269 883007430 Ubiquitin-like proteins; Region: UBQ; cl00155 883007431 Response regulator receiver domain; Region: Response_reg; pfam00072 883007432 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 883007433 active site 883007434 phosphorylation site [posttranslational modification] 883007435 intermolecular recognition site; other site 883007436 dimerization interface [polypeptide binding]; other site 883007437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883007438 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 883007439 dimer interface [polypeptide binding]; other site 883007440 phosphorylation site [posttranslational modification] 883007441 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 883007442 ATP binding site [chemical binding]; other site 883007443 Mg2+ binding site [ion binding]; other site 883007444 G-X-G motif; other site 883007445 Response regulator receiver domain; Region: Response_reg; pfam00072 883007446 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 883007447 active site 883007448 phosphorylation site [posttranslational modification] 883007449 intermolecular recognition site; other site 883007450 dimerization interface [polypeptide binding]; other site 883007451 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 883007452 Peptidase family M50; Region: Peptidase_M50; pfam02163 883007453 active site 883007454 putative substrate binding region [chemical binding]; other site 883007455 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 883007456 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 883007457 active site 883007458 HIGH motif; other site 883007459 dimer interface [polypeptide binding]; other site 883007460 KMSKS motif; other site 883007461 Flagellin N-methylase; Region: FliB; pfam03692 883007462 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 883007463 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 883007464 active site 883007465 nucleotide binding site [chemical binding]; other site 883007466 HIGH motif; other site 883007467 KMSKS motif; other site 883007468 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883007469 pyruvate phosphate dikinase; Provisional; Region: PRK05878 883007470 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883007471 HAMP domain; Region: HAMP; pfam00672 883007472 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883007473 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 883007474 Walker A motif; other site 883007475 ATP binding site [chemical binding]; other site 883007476 Walker B motif; other site 883007477 arginine finger; other site 883007478 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883007479 Response regulator receiver domain; Region: Response_reg; pfam00072 883007480 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 883007481 active site 883007482 phosphorylation site [posttranslational modification] 883007483 intermolecular recognition site; other site 883007484 dimerization interface [polypeptide binding]; other site 883007485 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 883007486 potential frameshift: common BLAST hit: gi|46581475|ref|YP_012283.1| ABC transporter permease 883007487 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 883007488 dimer interface [polypeptide binding]; other site 883007489 conserved gate region; other site 883007490 putative PBP binding loops; other site 883007491 ABC-ATPase subunit interface; other site 883007492 GAF domain; Region: GAF; pfam01590 883007493 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 883007494 PAS fold; Region: PAS_3; pfam08447 883007495 putative active site [active] 883007496 heme pocket [chemical binding]; other site 883007497 PAS domain S-box; Region: sensory_box; TIGR00229 883007498 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 883007499 putative active site [active] 883007500 heme pocket [chemical binding]; other site 883007501 PAS domain S-box; Region: sensory_box; TIGR00229 883007502 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 883007503 putative active site [active] 883007504 heme pocket [chemical binding]; other site 883007505 PAS domain S-box; Region: sensory_box; TIGR00229 883007506 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 883007507 putative active site [active] 883007508 heme pocket [chemical binding]; other site 883007509 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883007510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007511 metal binding site [ion binding]; metal-binding site 883007512 active site 883007513 I-site; other site 883007514 YceG-like family; Region: YceG; pfam02618 883007515 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 883007516 dimerization interface [polypeptide binding]; other site 883007517 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 883007518 FAD binding domain; Region: FAD_binding_4; pfam01565 883007519 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883007520 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883007521 Cysteine-rich domain; Region: CCG; pfam02754 883007522 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 883007523 AAA domain; Region: AAA_14; pfam13173 883007524 Acylphosphatase; Region: Acylphosphatase; pfam00708 883007525 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 883007526 HypF finger; Region: zf-HYPF; pfam07503 883007527 HypF finger; Region: zf-HYPF; pfam07503 883007528 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 883007529 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 883007530 non-specific DNA binding site [nucleotide binding]; other site 883007531 salt bridge; other site 883007532 sequence-specific DNA binding site [nucleotide binding]; other site 883007533 Cupin domain; Region: Cupin_2; pfam07883 883007534 AMP-binding domain protein; Validated; Region: PRK08315 883007535 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883007536 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 883007537 acyl-activating enzyme (AAE) consensus motif; other site 883007538 putative AMP binding site [chemical binding]; other site 883007539 putative active site [active] 883007540 putative CoA binding site [chemical binding]; other site 883007541 FAD binding domain; Region: FAD_binding_2; pfam00890 883007542 L-aspartate oxidase; Provisional; Region: PRK06175 883007543 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 883007544 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883007545 ligand binding site [chemical binding]; other site 883007546 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 883007547 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 883007548 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 883007549 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 883007550 TonB C terminal; Region: TonB_2; pfam13103 883007551 TolA protein; Region: tolA_full; TIGR02794 883007552 TolA protein; Region: tolA_full; TIGR02794 883007553 TonB C terminal; Region: TonB_2; pfam13103 883007554 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 883007555 TolR protein; Region: tolR; TIGR02801 883007556 TolQ protein; Region: tolQ; TIGR02796 883007557 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 883007558 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883007559 metal binding site 2 [ion binding]; metal-binding site 883007560 putative DNA binding helix; other site 883007561 metal binding site 1 [ion binding]; metal-binding site 883007562 dimer interface [polypeptide binding]; other site 883007563 structural Zn2+ binding site [ion binding]; other site 883007564 Rubrerythrin [Energy production and conversion]; Region: COG1592 883007565 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 883007566 binuclear metal center [ion binding]; other site 883007567 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 883007568 iron binding site [ion binding]; other site 883007569 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 883007570 Rubredoxin; Region: Rubredoxin; pfam00301 883007571 iron binding site [ion binding]; other site 883007572 Tetratricopeptide repeat; Region: TPR_16; pfam13432 883007573 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 883007574 TPR motif; other site 883007575 binding surface 883007576 TPR repeat; Region: TPR_11; pfam13414 883007577 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 883007578 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 883007579 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 883007580 catalytic site [active] 883007581 subunit interface [polypeptide binding]; other site 883007582 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 883007583 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 883007584 Ligand binding site; other site 883007585 oligomer interface; other site 883007586 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 883007587 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 883007588 G1 box; other site 883007589 putative GEF interaction site [polypeptide binding]; other site 883007590 GTP/Mg2+ binding site [chemical binding]; other site 883007591 Switch I region; other site 883007592 G2 box; other site 883007593 G3 box; other site 883007594 Switch II region; other site 883007595 G4 box; other site 883007596 G5 box; other site 883007597 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 883007598 PAS fold; Region: PAS_4; pfam08448 883007599 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883007600 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883007601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883007602 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 883007603 dimer interface [polypeptide binding]; other site 883007604 phosphorylation site [posttranslational modification] 883007605 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 883007606 ATP binding site [chemical binding]; other site 883007607 Mg2+ binding site [ion binding]; other site 883007608 G-X-G motif; other site 883007609 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883007610 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 883007611 active site 883007612 phosphorylation site [posttranslational modification] 883007613 intermolecular recognition site; other site 883007614 dimerization interface [polypeptide binding]; other site 883007615 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 883007616 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 883007617 FeS/SAM binding site; other site 883007618 HemN C-terminal domain; Region: HemN_C; pfam06969 883007619 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 883007620 Ligand Binding Site [chemical binding]; other site 883007621 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 883007622 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 883007623 homodimer interface [polypeptide binding]; other site 883007624 oligonucleotide binding site [chemical binding]; other site 883007625 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 883007626 FeS/SAM binding site; other site 883007627 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 883007628 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 883007629 S-adenosylmethionine binding site [chemical binding]; other site 883007630 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 883007631 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883007632 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883007633 ABC transporter; Region: ABC_tran_2; pfam12848 883007634 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883007635 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 883007636 active site 883007637 8-oxo-dGMP binding site [chemical binding]; other site 883007638 nudix motif; other site 883007639 metal binding site [ion binding]; metal-binding site 883007640 Protein of unknown function, DUF606; Region: DUF606; pfam04657 883007641 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 883007642 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 883007643 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 883007644 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 883007645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883007646 catalytic residue [active] 883007647 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883007648 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 883007649 Cytochrome c552; Region: Cytochrom_C552; pfam02335 883007650 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 883007651 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 883007652 active site 883007653 4Fe-4S binding domain; Region: Fer4_6; pfam12837 883007654 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 883007655 4Fe-4S binding domain; Region: Fer4; pfam00037 883007656 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 883007657 phosphate binding site [ion binding]; other site 883007658 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; cl00239 883007659 domain_subunit interface; other site 883007660 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 883007661 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 883007662 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 883007663 P loop; other site 883007664 Nucleotide binding site [chemical binding]; other site 883007665 DTAP/Switch II; other site 883007666 Switch I; other site 883007667 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 883007668 P loop; other site 883007669 Nucleotide binding site [chemical binding]; other site 883007670 DTAP/Switch II; other site 883007671 Switch I; other site 883007672 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 883007673 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 883007674 dimerization interface [polypeptide binding]; other site 883007675 putative DNA binding site [nucleotide binding]; other site 883007676 putative Zn2+ binding site [ion binding]; other site 883007677 CHAP domain; Region: CHAP; cl17642 883007678 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 883007679 active site clefts [active] 883007680 zinc binding site [ion binding]; other site 883007681 dimer interface [polypeptide binding]; other site 883007682 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883007683 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 883007684 Walker A/P-loop; other site 883007685 ATP binding site [chemical binding]; other site 883007686 Q-loop/lid; other site 883007687 ABC transporter signature motif; other site 883007688 Walker B; other site 883007689 D-loop; other site 883007690 H-loop/switch region; other site 883007691 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 883007692 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 883007693 Walker A/P-loop; other site 883007694 ATP binding site [chemical binding]; other site 883007695 Q-loop/lid; other site 883007696 ABC transporter signature motif; other site 883007697 Walker B; other site 883007698 D-loop; other site 883007699 H-loop/switch region; other site 883007700 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883007701 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 883007702 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 883007703 dimer interface [polypeptide binding]; other site 883007704 conserved gate region; other site 883007705 putative PBP binding loops; other site 883007706 ABC-ATPase subunit interface; other site 883007707 nickel transporter permease NikB; Provisional; Region: PRK10352 883007708 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 883007709 dimer interface [polypeptide binding]; other site 883007710 conserved gate region; other site 883007711 putative PBP binding loops; other site 883007712 ABC-ATPase subunit interface; other site 883007713 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 883007714 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 883007715 substrate binding site [chemical binding]; other site 883007716 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 883007717 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 883007718 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 883007719 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883007720 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 883007721 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883007722 putative substrate translocation pore; other site 883007723 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 883007724 dimerization interface [polypeptide binding]; other site 883007725 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 883007726 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 883007727 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883007728 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 883007729 Walker A motif; other site 883007730 ATP binding site [chemical binding]; other site 883007731 Walker B motif; other site 883007732 arginine finger; other site 883007733 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883007734 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 883007735 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 883007736 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 883007737 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 883007738 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 883007739 FHIPEP family; Region: FHIPEP; pfam00771 883007740 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 883007741 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 883007742 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 883007743 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 883007744 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 883007745 binding surface 883007746 TPR motif; other site 883007747 YopD protein; Region: YopD; pfam05844 883007748 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 883007749 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 883007750 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 883007751 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 883007752 Type III secretion needle MxiH like; Region: MxiH; cl09641 883007753 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883007754 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 883007755 type III secretion system protein; Reviewed; Region: PRK06937 883007756 Flagellar assembly protein FliH; Region: FliH; pfam02108 883007757 type III secretion system ATPase; Provisional; Region: PRK06936 883007758 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 883007759 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 883007760 Walker A motif/ATP binding site; other site 883007761 Walker B motif; other site 883007762 Type III secretion protein YscO; Region: YscO; pfam07321 883007763 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 883007764 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 883007765 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 883007766 type III secretion system protein YscR; Provisional; Region: PRK12797 883007767 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 883007768 anti sigma factor interaction site; other site 883007769 regulatory phosphorylation site [posttranslational modification]; other site 883007770 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 883007771 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 883007772 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 883007773 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883007774 catalytic residue [active] 883007775 oxidoreductase; Validated; Region: PRK05717 883007776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883007777 NAD(P) binding site [chemical binding]; other site 883007778 active site 883007779 HPP family; Region: HPP; pfam04982 883007780 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 883007781 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 883007782 acyl-activating enzyme (AAE) consensus motif; other site 883007783 AMP binding site [chemical binding]; other site 883007784 active site 883007785 CoA binding site [chemical binding]; other site 883007786 Protein of unknown function, DUF399; Region: DUF399; pfam04187 883007787 Protein of unknown function, DUF399; Region: DUF399; cl01139 883007788 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 883007789 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 883007790 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 883007791 catalytic residue [active] 883007792 putative catalytic residues [active] 883007793 H2TH interface [polypeptide binding]; other site 883007794 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 883007795 DNA binding site [nucleotide binding] 883007796 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 883007797 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 883007798 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 883007799 Competence protein; Region: Competence; pfam03772 883007800 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 883007801 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883007802 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 883007803 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 883007804 hinge; other site 883007805 active site 883007806 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 883007807 dimerization interface [polypeptide binding]; other site 883007808 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 883007809 dimer interface [polypeptide binding]; other site 883007810 phosphorylation site [posttranslational modification] 883007811 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 883007812 ATP binding site [chemical binding]; other site 883007813 Mg2+ binding site [ion binding]; other site 883007814 G-X-G motif; other site 883007815 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883007816 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 883007817 active site 883007818 phosphorylation site [posttranslational modification] 883007819 intermolecular recognition site; other site 883007820 dimerization interface [polypeptide binding]; other site 883007821 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 883007822 PAS domain; Region: PAS_9; pfam13426 883007823 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 883007824 putative active site [active] 883007825 heme pocket [chemical binding]; other site 883007826 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883007827 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007828 metal binding site [ion binding]; metal-binding site 883007829 active site 883007830 I-site; other site 883007831 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 883007832 Hemerythrin; Region: Hemerythrin; cd12107 883007833 Fe binding site [ion binding]; other site 883007834 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 883007835 putative catalytic site [active] 883007836 putative metal binding site [ion binding]; other site 883007837 putative phosphate binding site [ion binding]; other site 883007838 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 883007839 Iron-sulfur protein interface; other site 883007840 proximal heme binding site [chemical binding]; other site 883007841 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 883007842 L-aspartate oxidase; Provisional; Region: PRK06175 883007843 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 883007844 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 883007845 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 883007846 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 883007847 fumarate hydratase; Provisional; Region: PRK06246 883007848 Fumarase C-terminus; Region: Fumerase_C; cl00795 883007849 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 883007850 Uncharacterized conserved protein [Function unknown]; Region: COG1915 883007851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 883007852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 883007853 LysR substrate binding domain; Region: LysR_substrate; pfam03466 883007854 dimerization interface [polypeptide binding]; other site 883007855 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; cl11398 883007856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 883007857 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 883007858 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883007859 4Fe-4S binding domain; Region: Fer4_6; pfam12837 883007860 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883007861 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 883007862 putative [4Fe-4S] binding site [ion binding]; other site 883007863 putative molybdopterin cofactor binding site [chemical binding]; other site 883007864 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 883007865 molybdopterin cofactor binding site; other site 883007866 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 883007867 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 883007868 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 883007869 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 883007870 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 883007871 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 883007872 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 883007873 homodimer interaction site [polypeptide binding]; other site 883007874 cofactor binding site; other site 883007875 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 883007876 active site 883007877 catalytic residues [active] 883007878 DNA binding site [nucleotide binding] 883007879 Int/Topo IB signature motif; other site 883007880 molybdenum-pterin binding domain; Region: Mop; TIGR00638 883007881 TOBE domain; Region: TOBE; cl01440 883007882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883007883 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 883007884 Walker A/P-loop; other site 883007885 ATP binding site [chemical binding]; other site 883007886 Q-loop/lid; other site 883007887 ABC transporter signature motif; other site 883007888 Walker B; other site 883007889 D-loop; other site 883007890 H-loop/switch region; other site 883007891 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 883007892 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 883007893 dimer interface [polypeptide binding]; other site 883007894 conserved gate region; other site 883007895 putative PBP binding loops; other site 883007896 ABC-ATPase subunit interface; other site 883007897 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 883007898 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883007899 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 883007900 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 883007901 Rubredoxin; Region: Rubredoxin; pfam00301 883007902 iron binding site [ion binding]; other site 883007903 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 883007904 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 883007905 non-heme iron binding site [ion binding]; other site 883007906 dimer interface [polypeptide binding]; other site 883007907 Superoxide reductase-like (SORL) domain, class I; 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_Dfx_classI; cd03171 883007908 non-heme iron binding site [ion binding]; other site 883007909 dimer interface [polypeptide binding]; other site 883007910 HAMP domain; Region: HAMP; pfam00672 883007911 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 883007912 PAS domain; Region: PAS_9; pfam13426 883007913 putative active site [active] 883007914 heme pocket [chemical binding]; other site 883007915 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883007916 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883007917 dimer interface [polypeptide binding]; other site 883007918 putative CheW interface [polypeptide binding]; other site 883007919 HAMP domain; Region: HAMP; pfam00672 883007920 PAS domain S-box; Region: sensory_box; TIGR00229 883007921 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 883007922 putative active site [active] 883007923 heme pocket [chemical binding]; other site 883007924 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883007925 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 883007926 dimer interface [polypeptide binding]; other site 883007927 phosphorylation site [posttranslational modification] 883007928 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 883007929 ATP binding site [chemical binding]; other site 883007930 Mg2+ binding site [ion binding]; other site 883007931 G-X-G motif; other site 883007932 Response regulator receiver domain; Region: Response_reg; pfam00072 883007933 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 883007934 active site 883007935 phosphorylation site [posttranslational modification] 883007936 intermolecular recognition site; other site 883007937 dimerization interface [polypeptide binding]; other site 883007938 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 883007939 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 883007940 dimerization interface [polypeptide binding]; other site 883007941 ATP binding site [chemical binding]; other site 883007942 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 883007943 dimerization interface [polypeptide binding]; other site 883007944 ATP binding site [chemical binding]; other site 883007945 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 883007946 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14262 883007947 Walker A/P-loop; other site 883007948 ATP binding site [chemical binding]; other site 883007949 Q-loop/lid; other site 883007950 ABC transporter signature motif; other site 883007951 Walker B; other site 883007952 D-loop; other site 883007953 H-loop/switch region; other site 883007954 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 883007955 dimer interface [polypeptide binding]; other site 883007956 conserved gate region; other site 883007957 putative PBP binding loops; other site 883007958 ABC-ATPase subunit interface; other site 883007959 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 883007960 dimer interface [polypeptide binding]; other site 883007961 conserved gate region; other site 883007962 putative PBP binding loops; other site 883007963 ABC-ATPase subunit interface; other site 883007964 PBP superfamily domain; Region: PBP_like_2; cl17296 883007965 HDOD domain; Region: HDOD; pfam08668 883007966 PAS fold; Region: PAS_4; pfam08448 883007967 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883007968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007969 metal binding site [ion binding]; metal-binding site 883007970 active site 883007971 I-site; other site 883007972 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 883007973 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 883007974 substrate binding pocket [chemical binding]; other site 883007975 chain length determination region; other site 883007976 substrate-Mg2+ binding site; other site 883007977 catalytic residues [active] 883007978 aspartate-rich region 1; other site 883007979 active site lid residues [active] 883007980 aspartate-rich region 2; other site 883007981 futalosine nucleosidase; Region: fut_nucase; TIGR03664 883007982 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 883007983 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 883007984 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 883007985 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 883007986 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 883007987 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 883007988 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 883007989 S-adenosylmethionine binding site [chemical binding]; other site 883007990 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007991 heme-binding residues [chemical binding]; other site 883007992 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 883007993 active site 883007994 SAM binding site [chemical binding]; other site 883007995 homodimer interface [polypeptide binding]; other site 883007996 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 883007997 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 883007998 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 883007999 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 883008000 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 883008001 inhibitor-cofactor binding pocket; inhibition site 883008002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883008003 catalytic residue [active] 883008004 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 883008005 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 883008006 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 883008007 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 883008008 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 883008009 G1 box; other site 883008010 putative GEF interaction site [polypeptide binding]; other site 883008011 GTP/Mg2+ binding site [chemical binding]; other site 883008012 Switch I region; other site 883008013 G2 box; other site 883008014 G3 box; other site 883008015 Switch II region; other site 883008016 G4 box; other site 883008017 G5 box; other site 883008018 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 883008019 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 883008020 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 883008021 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 883008022 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 883008023 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 883008024 RNase E interface [polypeptide binding]; other site 883008025 trimer interface [polypeptide binding]; other site 883008026 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 883008027 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 883008028 RNase E interface [polypeptide binding]; other site 883008029 trimer interface [polypeptide binding]; other site 883008030 active site 883008031 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 883008032 putative nucleic acid binding region [nucleotide binding]; other site 883008033 G-X-X-G motif; other site 883008034 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 883008035 RNA binding site [nucleotide binding]; other site 883008036 domain interface; other site 883008037 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 883008038 16S/18S rRNA binding site [nucleotide binding]; other site 883008039 S13e-L30e interaction site [polypeptide binding]; other site 883008040 25S rRNA binding site [nucleotide binding]; other site 883008041 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 883008042 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 883008043 RNA binding site [nucleotide binding]; other site 883008044 active site 883008045 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 883008046 DHH family; Region: DHH; pfam01368 883008047 Protein of unknown function (DUF503); Region: DUF503; pfam04456 883008048 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 883008049 translation initiation factor IF-2; Region: IF-2; TIGR00487 883008050 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 883008051 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 883008052 G1 box; other site 883008053 putative GEF interaction site [polypeptide binding]; other site 883008054 GTP/Mg2+ binding site [chemical binding]; other site 883008055 Switch I region; other site 883008056 G2 box; other site 883008057 G3 box; other site 883008058 Switch II region; other site 883008059 G4 box; other site 883008060 G5 box; other site 883008061 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 883008062 Translation-initiation factor 2; Region: IF-2; pfam11987 883008063 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 883008064 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; cl00189 883008065 putative RNA binding cleft [nucleotide binding]; other site 883008066 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 883008067 NusA N-terminal domain; Region: NusA_N; pfam08529 883008068 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 883008069 RNA binding site [nucleotide binding]; other site 883008070 homodimer interface [polypeptide binding]; other site 883008071 NusA-like KH domain; Region: KH_5; pfam13184 883008072 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 883008073 G-X-X-G motif; other site 883008074 ribosome maturation protein RimP; Reviewed; Region: PRK00092 883008075 Sm and related proteins; Region: Sm_like; cl00259 883008076 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 883008077 putative oligomer interface [polypeptide binding]; other site 883008078 putative RNA binding site [nucleotide binding]; other site 883008079 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 883008080 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883008081 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883008082 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 883008083 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 883008084 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883008085 SAF-like; Region: SAF_2; pfam13144 883008086 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 883008087 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 883008088 Flagellar L-ring protein; Region: FlgH; pfam02107 883008089 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 883008090 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 883008091 Rod binding protein; Region: Rod-binding; cl01626 883008092 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 883008093 Peptidase family M23; Region: Peptidase_M23; pfam01551 883008094 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 883008095 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 883008096 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 883008097 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883008098 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883008099 Global regulator protein family; Region: CsrA; pfam02599 883008100 flagellar assembly protein FliW; Provisional; Region: PRK13285 883008101 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883008102 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 883008103 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 883008104 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883008105 Walker A motif; other site 883008106 ATP binding site [chemical binding]; other site 883008107 Walker B motif; other site 883008108 arginine finger; other site 883008109 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883008110 Mechanosensitive ion channel; Region: MS_channel; pfam00924 883008111 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 883008112 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 883008113 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008114 heme-binding residues [chemical binding]; other site 883008115 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883008116 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 883008117 [4Fe-4S] binding site [ion binding]; other site 883008118 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 883008119 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 883008120 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 883008121 molybdopterin cofactor binding site; other site 883008122 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883008123 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 883008124 Methyltransferase domain; Region: Methyltransf_31; pfam13847 883008125 S-adenosylmethionine binding site [chemical binding]; other site 883008126 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883008127 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 883008128 active site 883008129 phosphorylation site [posttranslational modification] 883008130 intermolecular recognition site; other site 883008131 dimerization interface [polypeptide binding]; other site 883008132 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 883008133 Walker A motif; other site 883008134 ATP binding site [chemical binding]; other site 883008135 Walker B motif; other site 883008136 arginine finger; other site 883008137 PAS domain S-box; Region: sensory_box; TIGR00229 883008138 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 883008139 putative active site [active] 883008140 heme pocket [chemical binding]; other site 883008141 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 883008142 PAS fold; Region: PAS_3; pfam08447 883008143 putative active site [active] 883008144 heme pocket [chemical binding]; other site 883008145 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 883008146 PAS domain; Region: PAS_9; pfam13426 883008147 putative active site [active] 883008148 heme pocket [chemical binding]; other site 883008149 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883008150 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 883008151 ATP binding site [chemical binding]; other site 883008152 Mg2+ binding site [ion binding]; other site 883008153 G-X-G motif; other site 883008154 Response regulator receiver domain; Region: Response_reg; pfam00072 883008155 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 883008156 active site 883008157 phosphorylation site [posttranslational modification] 883008158 intermolecular recognition site; other site 883008159 dimerization interface [polypeptide binding]; other site 883008160 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883008161 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 883008162 substrate binding pocket [chemical binding]; other site 883008163 membrane-bound complex binding site; other site 883008164 hinge residues; other site 883008165 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883008166 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 883008167 putative active site [active] 883008168 heme pocket [chemical binding]; other site 883008169 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 883008170 dimer interface [polypeptide binding]; other site 883008171 phosphorylation site [posttranslational modification] 883008172 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 883008173 ATP binding site [chemical binding]; other site 883008174 Mg2+ binding site [ion binding]; other site 883008175 G-X-G motif; other site 883008176 Response regulator receiver domain; Region: Response_reg; pfam00072 883008177 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 883008178 active site 883008179 phosphorylation site [posttranslational modification] 883008180 intermolecular recognition site; other site 883008181 dimerization interface [polypeptide binding]; other site 883008182 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883008183 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 883008184 active site 883008185 phosphorylation site [posttranslational modification] 883008186 intermolecular recognition site; other site 883008187 PAS domain; Region: PAS_8; pfam13188 883008188 PAS domain S-box; Region: sensory_box; TIGR00229 883008189 PAS domain S-box; Region: sensory_box; TIGR00229 883008190 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 883008191 putative active site [active] 883008192 heme pocket [chemical binding]; other site 883008193 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883008194 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 883008195 putative active site [active] 883008196 heme pocket [chemical binding]; other site 883008197 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 883008198 dimer interface [polypeptide binding]; other site 883008199 phosphorylation site [posttranslational modification] 883008200 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 883008201 ATP binding site [chemical binding]; other site 883008202 Mg2+ binding site [ion binding]; other site 883008203 G-X-G motif; other site 883008204 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883008205 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 883008206 dimerization interface [polypeptide binding]; other site 883008207 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883008209 dimer interface [polypeptide binding]; other site 883008210 putative CheW interface [polypeptide binding]; other site 883008211 Response regulator receiver domain; Region: Response_reg; pfam00072 883008212 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 883008213 active site 883008214 phosphorylation site [posttranslational modification] 883008215 intermolecular recognition site; other site 883008216 dimerization interface [polypeptide binding]; other site 883008217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883008218 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 883008219 dimer interface [polypeptide binding]; other site 883008220 phosphorylation site [posttranslational modification] 883008221 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 883008222 ATP binding site [chemical binding]; other site 883008223 Mg2+ binding site [ion binding]; other site 883008224 G-X-G motif; other site 883008225 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 883008226 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883008227 Zn2+ binding site [ion binding]; other site 883008228 Mg2+ binding site [ion binding]; other site 883008229 Transcriptional regulator; Region: Rrf2; pfam02082 883008230 Predicted transcriptional regulator [Transcription]; Region: COG1959 883008231 Transcriptional regulator; Region: Rrf2; cl17282 883008232 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 883008233 dimerization interface [polypeptide binding]; other site 883008234 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 883008235 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 883008236 putative active site [active] 883008237 heme pocket [chemical binding]; other site 883008238 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 883008239 dimer interface [polypeptide binding]; other site 883008240 phosphorylation site [posttranslational modification] 883008241 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 883008242 ATP binding site [chemical binding]; other site 883008243 Mg2+ binding site [ion binding]; other site 883008244 G-X-G motif; other site 883008245 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 883008246 Response regulator receiver domain; Region: Response_reg; pfam00072 883008247 active site 883008248 phosphorylation site [posttranslational modification] 883008249 intermolecular recognition site; other site 883008250 dimerization interface [polypeptide binding]; other site 883008251 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 883008252 ATP binding site [chemical binding]; other site 883008253 G-X-G motif; other site 883008254 Response regulator receiver domain; Region: Response_reg; pfam00072 883008255 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 883008256 active site 883008257 phosphorylation site [posttranslational modification] 883008258 intermolecular recognition site; other site 883008259 dimerization interface [polypeptide binding]; other site 883008260 PAS domain; Region: PAS_9; pfam13426 883008261 PAS domain; Region: PAS_9; pfam13426 883008262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883008263 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 883008264 ATP binding site [chemical binding]; other site 883008265 Mg2+ binding site [ion binding]; other site 883008266 G-X-G motif; other site 883008267 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 883008268 active site 883008269 phosphorylation site [posttranslational modification] 883008270 intermolecular recognition site; other site 883008271 dimerization interface [polypeptide binding]; other site 883008272 Response regulator receiver domain; Region: Response_reg; pfam00072 883008273 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 883008274 active site 883008275 phosphorylation site [posttranslational modification] 883008276 intermolecular recognition site; other site 883008277 dimerization interface [polypeptide binding]; other site 883008278 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 883008279 Ligand Binding Site [chemical binding]; other site 883008280 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 883008281 Ligand Binding Site [chemical binding]; other site 883008282 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008283 heme-binding residues [chemical binding]; other site 883008284 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883008285 Cysteine-rich domain; Region: CCG; pfam02754 883008286 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883008287 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 883008288 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 883008289 conserved cys residue [active] 883008290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883008291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883008292 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 883008293 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 883008294 conserved cys residue [active] 883008295 Protein of unknown function (DUF721); Region: DUF721; pfam05258 883008296 Cache domain; Region: Cache_1; pfam02743 883008297 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 883008298 dimerization interface [polypeptide binding]; other site 883008299 PAS domain; Region: PAS_9; pfam13426 883008300 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883008302 dimer interface [polypeptide binding]; other site 883008303 putative CheW interface [polypeptide binding]; other site 883008304 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 883008305 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 883008306 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 883008307 dimer interface [polypeptide binding]; other site 883008308 conserved gate region; other site 883008309 ABC-ATPase subunit interface; other site 883008310 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 883008311 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 883008312 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 883008313 dimer interface [polypeptide binding]; other site 883008314 conserved gate region; other site 883008315 putative PBP binding loops; other site 883008316 ABC-ATPase subunit interface; other site 883008317 Fic family protein [Function unknown]; Region: COG3177 883008318 Fic/DOC family; Region: Fic; pfam02661 883008319 MoxR-like ATPases [General function prediction only]; Region: COG0714 883008320 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 883008321 Walker A motif; other site 883008322 ATP binding site [chemical binding]; other site 883008323 Walker B motif; other site 883008324 arginine finger; other site 883008325 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 883008326 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 883008327 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883008328 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 883008329 active site 883008330 phosphorylation site [posttranslational modification] 883008331 intermolecular recognition site; other site 883008332 dimerization interface [polypeptide binding]; other site 883008333 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 883008334 Walker A motif; other site 883008335 ATP binding site [chemical binding]; other site 883008336 Walker B motif; other site 883008337 arginine finger; other site 883008338 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883008339 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883008340 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 883008341 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 883008342 dimer interface [polypeptide binding]; other site 883008343 phosphorylation site [posttranslational modification] 883008344 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 883008345 ATP binding site [chemical binding]; other site 883008346 Mg2+ binding site [ion binding]; other site 883008347 G-X-G motif; other site 883008348 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 883008349 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 883008350 Ligand Binding Site [chemical binding]; other site 883008351 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 883008352 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 883008353 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883008354 Soluble P-type ATPase [General function prediction only]; Region: COG4087 883008355 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 883008356 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 883008357 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 883008358 dimerization interface [polypeptide binding]; other site 883008359 putative DNA binding site [nucleotide binding]; other site 883008360 putative Zn2+ binding site [ion binding]; other site 883008361 Methyltransferase domain; Region: Methyltransf_23; pfam13489 883008362 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 883008363 S-adenosylmethionine binding site [chemical binding]; other site 883008364 Adenosylhomocysteinase; Provisional; Region: PTZ00075 883008365 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 883008366 homotetramer interface [polypeptide binding]; other site 883008367 ligand binding site [chemical binding]; other site 883008368 catalytic site [active] 883008369 NAD binding site [chemical binding]; other site 883008370 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 883008371 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 883008372 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 883008373 Dak1 domain; Region: Dak1; pfam02733 883008374 DAK2 domain; Region: Dak2; cl03685 883008375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 883008376 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 883008377 regulatory protein interface [polypeptide binding]; other site 883008378 active site 883008379 regulatory phosphorylation site [posttranslational modification]; other site 883008380 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 883008381 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 883008382 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883008383 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 883008384 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 883008385 Maf-like protein; Region: Maf; pfam02545 883008386 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 883008387 active site 883008388 dimer interface [polypeptide binding]; other site 883008389 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 883008390 tetramer interfaces [polypeptide binding]; other site 883008391 binuclear metal-binding site [ion binding]; other site 883008392 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883008393 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 883008394 Response regulator receiver domain; Region: Response_reg; pfam00072 883008395 active site 883008396 phosphorylation site [posttranslational modification] 883008397 intermolecular recognition site; other site 883008398 dimerization interface [polypeptide binding]; other site 883008399 Transcriptional regulator; Region: Rrf2; cl17282 883008400 Rrf2 family protein; Region: rrf2_super; TIGR00738 883008401 Response regulator receiver domain; Region: Response_reg; pfam00072 883008402 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 883008403 active site 883008404 phosphorylation site [posttranslational modification] 883008405 intermolecular recognition site; other site 883008406 dimerization interface [polypeptide binding]; other site 883008407 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883008408 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883008409 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 883008410 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 883008411 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883008412 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008413 heme-binding residues [chemical binding]; other site 883008414 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008415 heme-binding residues [chemical binding]; other site 883008416 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008417 heme-binding residues [chemical binding]; other site 883008418 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008419 heme-binding residues [chemical binding]; other site 883008420 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 883008421 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883008422 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883008423 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 883008424 active site 883008425 phosphorylation site [posttranslational modification] 883008426 intermolecular recognition site; other site 883008427 dimerization interface [polypeptide binding]; other site 883008428 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 883008429 Walker A motif; other site 883008430 ATP binding site [chemical binding]; other site 883008431 Walker B motif; other site 883008432 arginine finger; other site 883008433 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 883008434 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883008435 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 883008436 phosphorylation site [posttranslational modification] 883008437 dimer interface [polypeptide binding]; other site 883008438 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 883008439 ATP binding site [chemical binding]; other site 883008440 Mg2+ binding site [ion binding]; other site 883008441 G-X-G motif; other site 883008442 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883008443 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 883008444 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 883008445 Ligand Binding Site [chemical binding]; other site 883008446 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 883008447 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 883008448 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883008449 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 883008450 dimerization interface [polypeptide binding]; other site 883008451 ligand binding site [chemical binding]; other site 883008452 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 883008453 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 883008454 TM-ABC transporter signature motif; other site 883008455 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 883008456 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 883008457 TM-ABC transporter signature motif; other site 883008458 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883008459 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 883008460 Walker A/P-loop; other site 883008461 ATP binding site [chemical binding]; other site 883008462 Q-loop/lid; other site 883008463 ABC transporter signature motif; other site 883008464 Walker B; other site 883008465 D-loop; other site 883008466 H-loop/switch region; other site 883008467 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883008468 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 883008469 Walker A/P-loop; other site 883008470 ATP binding site [chemical binding]; other site 883008471 Q-loop/lid; other site 883008472 ABC transporter signature motif; other site 883008473 Walker B; other site 883008474 D-loop; other site 883008475 H-loop/switch region; other site 883008476 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 883008477 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 883008478 active site 883008479 catalytic residues [active] 883008480 metal binding site [ion binding]; metal-binding site 883008481 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 883008482 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 883008483 Nucleotide-binding sites [chemical binding]; other site 883008484 Walker A motif; other site 883008485 Switch I region of nucleotide binding site; other site 883008486 Fe4S4 binding sites [ion binding]; other site 883008487 Switch II region of nucleotide binding site; other site 883008488 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 883008489 Nitrogen regulatory protein P-II; Region: P-II; smart00938 883008490 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 883008491 Nitrogen regulatory protein P-II; Region: P-II; smart00938 883008492 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 883008493 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 883008494 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 883008495 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 883008496 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 883008497 FeS/SAM binding site; other site 883008498 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883008499 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 883008500 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 883008501 dimer interface [polypeptide binding]; other site 883008502 [2Fe-2S] cluster binding site [ion binding]; other site 883008503 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 883008504 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 883008505 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 883008506 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 883008507 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 883008508 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 883008509 FeS/SAM binding site; other site 883008510 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 883008511 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 883008512 active site residue [active] 883008513 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 883008514 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 883008515 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 883008516 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 883008517 butyrate kinase; Provisional; Region: PRK03011 883008518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883008519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883008520 conserved hypothetical protein; Region: TIGR02231 883008521 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 883008522 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 883008523 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 883008524 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 883008525 Transglycosylase; Region: Transgly; pfam00912 883008526 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 883008527 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 883008528 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 883008529 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 883008530 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 883008531 NAD(P) binding site [chemical binding]; other site 883008532 catalytic residues [active] 883008533 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 883008534 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 883008535 hypothetical protein; Validated; Region: PRK00068 883008536 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883008537 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 883008538 substrate binding pocket [chemical binding]; other site 883008539 membrane-bound complex binding site; other site 883008540 hinge residues; other site 883008541 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883008542 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883008543 metal binding site [ion binding]; metal-binding site 883008544 active site 883008545 I-site; other site 883008546 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 883008547 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 883008548 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 883008549 putative active site [active] 883008550 heme pocket [chemical binding]; other site 883008551 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883008552 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 883008553 putative active site [active] 883008554 heme pocket [chemical binding]; other site 883008555 PAS domain S-box; Region: sensory_box; TIGR00229 883008556 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 883008557 putative active site [active] 883008558 heme pocket [chemical binding]; other site 883008559 PAS domain; Region: PAS; smart00091 883008560 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883008561 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 883008562 dimer interface [polypeptide binding]; other site 883008563 phosphorylation site [posttranslational modification] 883008564 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 883008565 ATP binding site [chemical binding]; other site 883008566 Mg2+ binding site [ion binding]; other site 883008567 G-X-G motif; other site 883008568 twin arginine translocase protein A; Provisional; Region: tatA; PRK14860 883008569 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 883008570 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 883008571 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883008572 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 883008573 active site 883008574 phosphorylation site [posttranslational modification] 883008575 intermolecular recognition site; other site 883008576 dimerization interface [polypeptide binding]; other site 883008577 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883008578 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 883008579 active site 883008580 phosphorylation site [posttranslational modification] 883008581 intermolecular recognition site; other site 883008582 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 883008583 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883008584 Walker A motif; other site 883008585 ATP binding site [chemical binding]; other site 883008586 Walker B motif; other site 883008587 arginine finger; other site 883008588 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 883008589 Peptidase family U32; Region: Peptidase_U32; pfam01136 883008590 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 883008591 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 883008592 active site 883008593 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 883008594 Uncharacterized conserved protein [Function unknown]; Region: COG2835 883008595 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883008596 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 883008597 putative dimer interface [polypeptide binding]; other site 883008598 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883008599 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 883008600 putative dimer interface [polypeptide binding]; other site 883008601 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 883008602 active site 883008603 metal binding site [ion binding]; metal-binding site 883008604 homotetramer interface [polypeptide binding]; other site 883008605 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 883008606 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 883008607 FMN binding site [chemical binding]; other site 883008608 active site 883008609 catalytic residues [active] 883008610 substrate binding site [chemical binding]; other site 883008611 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 883008612 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 883008613 DNA binding residues [nucleotide binding] 883008614 putative dimer interface [polypeptide binding]; other site 883008615 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 883008616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 883008617 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 883008618 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 883008619 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 883008620 serine O-acetyltransferase; Region: cysE; TIGR01172 883008621 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 883008622 trimer interface [polypeptide binding]; other site 883008623 active site 883008624 substrate binding site [chemical binding]; other site 883008625 CoA binding site [chemical binding]; other site 883008626 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 883008627 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 883008628 dimer interface [polypeptide binding]; other site 883008629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883008630 catalytic residue [active] 883008631 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 883008632 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 883008633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883008634 catalytic residue [active] 883008635 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 883008636 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 883008637 trimerization site [polypeptide binding]; other site 883008638 active site 883008639 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 883008640 NifU-like domain; Region: NifU; pfam01106 883008641 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883008642 Zn2+ binding site [ion binding]; other site 883008643 Mg2+ binding site [ion binding]; other site 883008644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883008645 Zn2+ binding site [ion binding]; other site 883008646 Mg2+ binding site [ion binding]; other site 883008647 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 883008648 PAS domain; Region: PAS_9; pfam13426 883008649 putative active site [active] 883008650 heme pocket [chemical binding]; other site 883008651 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883008653 dimer interface [polypeptide binding]; other site 883008654 putative CheW interface [polypeptide binding]; other site 883008655 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 883008656 Peptidase family M48; Region: Peptidase_M48; cl12018 883008657 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 883008658 phosphate binding site [ion binding]; other site 883008659 Uncharacterized conserved protein [Function unknown]; Region: COG0432 883008660 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 883008661 Flagellar protein YcgR; Region: YcgR_2; pfam12945 883008662 PilZ domain; Region: PilZ; pfam07238 883008663 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 883008664 RNA/DNA hybrid binding site [nucleotide binding]; other site 883008665 active site 883008666 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 883008667 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 883008668 4Fe-4S binding domain; Region: Fer4; pfam00037 883008669 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 883008670 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 883008671 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 883008672 active site 883008673 substrate binding site [chemical binding]; other site 883008674 metal binding site [ion binding]; metal-binding site 883008675 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 883008676 HflK protein; Region: hflK; TIGR01933 883008677 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 883008678 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 883008679 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 883008680 sequence-specific DNA binding site [nucleotide binding]; other site 883008681 Predicted transcriptional regulator [Transcription]; Region: COG2932 883008682 salt bridge; other site 883008683 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 883008684 Catalytic site [active] 883008685 Response regulator receiver domain; Region: Response_reg; pfam00072 883008686 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 883008687 active site 883008688 phosphorylation site [posttranslational modification] 883008689 intermolecular recognition site; other site 883008690 dimerization interface [polypeptide binding]; other site 883008691 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 883008692 dimer interface [polypeptide binding]; other site 883008693 phosphorylation site [posttranslational modification] 883008694 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 883008695 ATP binding site [chemical binding]; other site 883008696 Mg2+ binding site [ion binding]; other site 883008697 G-X-G motif; other site 883008698 Response regulator receiver domain; Region: Response_reg; pfam00072 883008699 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 883008700 active site 883008701 phosphorylation site [posttranslational modification] 883008702 intermolecular recognition site; other site 883008703 dimerization interface [polypeptide binding]; other site 883008704 PAS domain; Region: PAS_9; pfam13426 883008705 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883008706 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 883008707 dimer interface [polypeptide binding]; other site 883008708 phosphorylation site [posttranslational modification] 883008709 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 883008710 ATP binding site [chemical binding]; other site 883008711 Mg2+ binding site [ion binding]; other site 883008712 G-X-G motif; other site 883008713 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883008714 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 883008715 active site 883008716 phosphorylation site [posttranslational modification] 883008717 intermolecular recognition site; other site 883008718 dimerization interface [polypeptide binding]; other site 883008719 Protein of unknown function (DUF972); Region: DUF972; pfam06156 883008720 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 883008721 Walker A motif; other site 883008722 ATP binding site [chemical binding]; other site 883008723 Walker B motif; other site 883008724 arginine finger; other site 883008725 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883008726 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 883008727 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 883008728 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 883008729 murein hydrolase B; Provisional; Region: PRK10760; cl17906 883008730 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883008731 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 883008732 dimer interface [polypeptide binding]; other site 883008733 phosphorylation site [posttranslational modification] 883008734 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 883008735 ATP binding site [chemical binding]; other site 883008736 Mg2+ binding site [ion binding]; other site 883008737 G-X-G motif; other site 883008738 Response regulator receiver domain; Region: Response_reg; pfam00072 883008739 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 883008740 active site 883008741 phosphorylation site [posttranslational modification] 883008742 intermolecular recognition site; other site 883008743 dimerization interface [polypeptide binding]; other site 883008744 PAS domain S-box; Region: sensory_box; TIGR00229 883008745 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 883008746 putative active site [active] 883008747 heme pocket [chemical binding]; other site 883008748 PAS domain S-box; Region: sensory_box; TIGR00229 883008749 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 883008750 putative active site [active] 883008751 heme pocket [chemical binding]; other site 883008752 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883008753 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 883008754 dimer interface [polypeptide binding]; other site 883008755 phosphorylation site [posttranslational modification] 883008756 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 883008757 ATP binding site [chemical binding]; other site 883008758 Mg2+ binding site [ion binding]; other site 883008759 G-X-G motif; other site 883008760 Response regulator receiver domain; Region: Response_reg; pfam00072 883008761 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 883008762 active site 883008763 phosphorylation site [posttranslational modification] 883008764 intermolecular recognition site; other site 883008765 dimerization interface [polypeptide binding]; other site 883008766 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883008767 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 883008768 dimer interface [polypeptide binding]; other site 883008769 conserved gate region; other site 883008770 putative PBP binding loops; other site 883008771 ABC-ATPase subunit interface; other site 883008772 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 883008773 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883008774 substrate binding pocket [chemical binding]; other site 883008775 membrane-bound complex binding site; other site 883008776 hinge residues; other site 883008777 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 883008778 dimer interface [polypeptide binding]; other site 883008779 conserved gate region; other site 883008780 ABC-ATPase subunit interface; other site 883008781 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 883008782 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 883008783 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883008784 4Fe-4S binding domain; Region: Fer4; cl02805 883008785 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 883008786 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883008787 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 883008788 molybdopterin cofactor binding site; other site 883008789 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 883008790 molybdopterin cofactor binding site; other site 883008791 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008792 heme-binding residues [chemical binding]; other site 883008793 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 883008794 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 883008795 Substrate binding site; other site 883008796 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 883008797 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 883008798 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883008799 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 883008800 dimer interface [polypeptide binding]; other site 883008801 phosphorylation site [posttranslational modification] 883008802 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 883008803 ATP binding site [chemical binding]; other site 883008804 Mg2+ binding site [ion binding]; other site 883008805 G-X-G motif; other site 883008806 Response regulator receiver domain; Region: Response_reg; pfam00072 883008807 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 883008808 active site 883008809 phosphorylation site [posttranslational modification] 883008810 intermolecular recognition site; other site 883008811 dimerization interface [polypeptide binding]; other site 883008812 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 883008813 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 883008814 NADP-binding site; other site 883008815 homotetramer interface [polypeptide binding]; other site 883008816 substrate binding site [chemical binding]; other site 883008817 homodimer interface [polypeptide binding]; other site 883008818 active site 883008819 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 883008820 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 883008821 NADP binding site [chemical binding]; other site 883008822 active site 883008823 putative substrate binding site [chemical binding]; other site 883008824 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 883008825 active site 883008826 Acyltransferase family; Region: Acyl_transf_3; pfam01757 883008827 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 883008828 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 883008829 GDP-Fucose binding site [chemical binding]; other site 883008830 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883008831 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 883008832 active site 883008833 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 883008834 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 883008835 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 883008836 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 883008837 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 883008838 Walker A/P-loop; other site 883008839 ATP binding site [chemical binding]; other site 883008840 Q-loop/lid; other site 883008841 ABC transporter signature motif; other site 883008842 Walker B; other site 883008843 D-loop; other site 883008844 H-loop/switch region; other site 883008845 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 883008846 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 883008847 ParB-like nuclease domain; Region: ParBc; pfam02195 883008848 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883008849 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 883008850 active site 883008851 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883008852 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 883008853 Probable Catalytic site; other site 883008854 metal-binding site 883008855 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883008856 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 883008857 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883008858 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 883008859 putative active site [active] 883008860 heme pocket [chemical binding]; other site 883008861 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 883008862 putative active site [active] 883008863 heme pocket [chemical binding]; other site 883008864 PAS domain; Region: PAS_9; pfam13426 883008865 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 883008866 heme pocket [chemical binding]; other site 883008867 putative active site [active] 883008868 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 883008869 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 883008870 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 883008871 putative FMN binding site [chemical binding]; other site 883008872 NADPH bind site [chemical binding]; other site 883008873 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 883008874 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883008876 dimer interface [polypeptide binding]; other site 883008877 putative CheW interface [polypeptide binding]; other site 883008878 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 883008879 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 883008880 dimerization interface [polypeptide binding]; other site 883008881 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 883008882 PAS domain; Region: PAS_9; pfam13426 883008883 putative active site [active] 883008884 heme pocket [chemical binding]; other site 883008885 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008886 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883008887 dimer interface [polypeptide binding]; other site 883008888 putative CheW interface [polypeptide binding]; other site 883008889 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 883008890 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 883008891 Uncharacterized conserved protein [Function unknown]; Region: COG2006 883008892 Domain of unknown function (DUF362); Region: DUF362; pfam04015 883008893 GTP-binding protein LepA; Provisional; Region: PRK05433 883008894 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 883008895 G1 box; other site 883008896 putative GEF interaction site [polypeptide binding]; other site 883008897 GTP/Mg2+ binding site [chemical binding]; other site 883008898 Switch I region; other site 883008899 G2 box; other site 883008900 G3 box; other site 883008901 Switch II region; other site 883008902 G4 box; other site 883008903 G5 box; other site 883008904 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 883008905 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 883008906 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 883008907 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 883008908 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 883008909 Catalytic site [active] 883008910 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 883008911 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 883008912 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 883008913 PLD-like domain; Region: PLDc_2; pfam13091 883008914 putative active site [active] 883008915 catalytic site [active] 883008916 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 883008917 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 883008918 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 883008919 FeS/SAM binding site; other site 883008920 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 883008921 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 883008922 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 883008923 FeS/SAM binding site; other site 883008924 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 883008925 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 883008926 catalytic residues [active] 883008927 catalytic nucleophile [active] 883008928 Recombinase; Region: Recombinase; pfam07508 883008929 ParB-like nuclease domain; Region: ParB; smart00470 883008930 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 883008931 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 883008932 catalytic residues [active] 883008933 catalytic nucleophile [active] 883008934 Recombinase; Region: Recombinase; pfam07508 883008935 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 883008936 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 883008937 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 883008938 Walker A motif; other site 883008939 ATP binding site [chemical binding]; other site 883008940 Walker B motif; other site 883008941 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 883008942 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 883008943 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883008944 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 883008945 PAS domain; Region: PAS_9; pfam13426 883008946 putative active site [active] 883008947 heme pocket [chemical binding]; other site 883008948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883008949 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 883008950 dimer interface [polypeptide binding]; other site 883008951 phosphorylation site [posttranslational modification] 883008952 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 883008953 ATP binding site [chemical binding]; other site 883008954 Mg2+ binding site [ion binding]; other site 883008955 G-X-G motif; other site 883008956 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883008957 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 883008958 active site 883008959 phosphorylation site [posttranslational modification] 883008960 intermolecular recognition site; other site 883008961 dimerization interface [polypeptide binding]; other site 883008962 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 883008963 TadE-like protein; Region: TadE; pfam07811 883008964 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 883008965 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 883008966 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 883008967 metal ion-dependent adhesion site (MIDAS); other site 883008968 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 883008969 TadE-like protein; Region: TadE; pfam07811 883008970 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 883008971 TPR repeat; Region: TPR_11; pfam13414 883008972 binding surface 883008973 TPR motif; other site 883008974 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 883008975 binding surface 883008976 TPR motif; other site 883008977 TPR repeat; Region: TPR_11; pfam13414 883008978 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 883008979 binding surface 883008980 TPR motif; other site 883008981 Tetratricopeptide repeat; Region: TPR_12; pfam13424 883008982 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 883008983 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 883008984 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 883008985 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 883008986 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 883008987 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 883008988 ATP binding site [chemical binding]; other site 883008989 Walker A motif; other site 883008990 hexamer interface [polypeptide binding]; other site 883008991 Walker B motif; other site 883008992 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 883008993 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 883008994 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 883008995 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 883008996 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 883008997 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 883008998 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883008999 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883009000 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883009001 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883009002 Response regulator receiver domain; Region: Response_reg; pfam00072 883009003 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 883009004 active site 883009005 phosphorylation site [posttranslational modification] 883009006 intermolecular recognition site; other site 883009007 dimerization interface [polypeptide binding]; other site 883009008 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 883009009 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883009010 Walker A motif; other site 883009011 ATP binding site [chemical binding]; other site 883009012 Walker B motif; other site 883009013 arginine finger; other site 883009014 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883009015 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883009016 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 883009017 dimerization interface [polypeptide binding]; other site 883009018 ligand binding site [chemical binding]; other site 883009019 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 883009020 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 883009021 TM-ABC transporter signature motif; other site 883009022 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 883009023 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 883009024 TM-ABC transporter signature motif; other site 883009025 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883009026 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 883009027 Walker A/P-loop; other site 883009028 ATP binding site [chemical binding]; other site 883009029 Q-loop/lid; other site 883009030 ABC transporter signature motif; other site 883009031 Walker B; other site 883009032 D-loop; other site 883009033 H-loop/switch region; other site 883009034 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883009035 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 883009036 Walker A/P-loop; other site 883009037 ATP binding site [chemical binding]; other site 883009038 Q-loop/lid; other site 883009039 ABC transporter signature motif; other site 883009040 Walker B; other site 883009041 D-loop; other site 883009042 H-loop/switch region; other site 883009043 Response regulator receiver domain; Region: Response_reg; pfam00072 883009044 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 883009045 active site 883009046 phosphorylation site [posttranslational modification] 883009047 intermolecular recognition site; other site 883009048 dimerization interface [polypeptide binding]; other site 883009049 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 883009050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883009051 ATP-grasp domain; Region: ATP-grasp; pfam02222 883009052 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 883009053 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 883009054 Cache domain; Region: Cache_1; pfam02743 883009055 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 883009056 dimerization interface [polypeptide binding]; other site 883009057 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883009058 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883009059 metal binding site [ion binding]; metal-binding site 883009060 active site 883009061 I-site; other site 883009062 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 883009063 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 883009064 catalytic residues [active] 883009065 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 883009066 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 883009067 MASE1; Region: MASE1; cl17823 883009068 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883009069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883009070 metal binding site [ion binding]; metal-binding site 883009071 active site 883009072 I-site; other site 883009073 Hemerythrin; Region: Hemerythrin; cd12107 883009074 Fe binding site [ion binding]; other site 883009075 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 883009076 PBP superfamily domain; Region: PBP_like_2; pfam12849 883009077 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883009078 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 883009079 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 883009080 HIGH motif; other site 883009081 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 883009082 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 883009083 active site 883009084 KMSKS motif; other site 883009085 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 883009086 tRNA binding surface [nucleotide binding]; other site 883009087 anticodon binding site; other site 883009088 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 883009089 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 883009090 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 883009091 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 883009092 active site 883009093 SAM binding site [chemical binding]; other site 883009094 homodimer interface [polypeptide binding]; other site 883009095 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 883009096 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 883009097 active site 883009098 MOSC domain; Region: MOSC; pfam03473 883009099 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 883009100 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 883009101 active site 883009102 substrate binding site [chemical binding]; other site 883009103 cosubstrate binding site; other site 883009104 catalytic site [active] 883009105 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 883009106 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883009107 PAS domain; Region: PAS_8; pfam13188 883009108 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 883009109 dimer interface [polypeptide binding]; other site 883009110 phosphorylation site [posttranslational modification] 883009111 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 883009112 ATP binding site [chemical binding]; other site 883009113 Mg2+ binding site [ion binding]; other site 883009114 G-X-G motif; other site 883009115 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883009116 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 883009117 ligand binding site [chemical binding]; other site 883009118 AMMECR1; Region: AMMECR1; pfam01871 883009119 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 883009120 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 883009121 Ligand Binding Site [chemical binding]; other site 883009122 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 883009123 Ligand Binding Site [chemical binding]; other site 883009124 PAS fold; Region: PAS_4; pfam08448 883009125 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 883009126 putative active site [active] 883009127 heme pocket [chemical binding]; other site 883009128 PAS fold; Region: PAS_4; pfam08448 883009129 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 883009130 putative active site [active] 883009131 heme pocket [chemical binding]; other site 883009132 PAS domain S-box; Region: sensory_box; TIGR00229 883009133 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 883009134 putative active site [active] 883009135 heme pocket [chemical binding]; other site 883009136 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 883009137 phosphorylation site [posttranslational modification] 883009138 dimer interface [polypeptide binding]; other site 883009139 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 883009140 ATP binding site [chemical binding]; other site 883009141 G-X-G motif; other site 883009142 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 883009143 active site 883009144 phosphorylation site [posttranslational modification] 883009145 intermolecular recognition site; other site 883009146 dimerization interface [polypeptide binding]; other site 883009147 PAS fold; Region: PAS_4; pfam08448 883009148 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 883009149 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883009150 Walker A motif; other site 883009151 ATP binding site [chemical binding]; other site 883009152 Walker B motif; other site 883009153 arginine finger; other site 883009154 Epoxide hydrolase N terminus; Region: EHN; pfam06441 883009155 PBP superfamily domain; Region: PBP_like_2; pfam12849 883009156 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 883009157 dimer interface [polypeptide binding]; other site 883009158 conserved gate region; other site 883009159 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883009160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883009161 Walker A/P-loop; other site 883009162 ATP binding site [chemical binding]; other site 883009163 Q-loop/lid; other site 883009164 ABC transporter signature motif; other site 883009165 Walker B; other site 883009166 D-loop; other site 883009167 H-loop/switch region; other site 883009168 acetyl-CoA synthetase; Provisional; Region: PRK00174 883009169 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 883009170 active site 883009171 CoA binding site [chemical binding]; other site 883009172 acyl-activating enzyme (AAE) consensus motif; other site 883009173 AMP binding site [chemical binding]; other site 883009174 acetate binding site [chemical binding]; other site 883009175 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 883009176 Response regulator receiver domain; Region: Response_reg; pfam00072 883009177 active site 883009178 phosphorylation site [posttranslational modification] 883009179 intermolecular recognition site; other site 883009180 dimerization interface [polypeptide binding]; other site 883009181 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 883009182 LytTr DNA-binding domain; Region: LytTR; smart00850 883009183 HAMP domain; Region: HAMP; pfam00672 883009184 PAS fold; Region: PAS_4; pfam08448 883009185 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883009186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883009187 dimer interface [polypeptide binding]; other site 883009188 putative CheW interface [polypeptide binding]; other site 883009189 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 883009190 dimer interface [polypeptide binding]; other site 883009191 conserved gate region; other site 883009192 putative PBP binding loops; other site 883009193 ABC-ATPase subunit interface; other site 883009194 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883009195 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 883009196 dimer interface [polypeptide binding]; other site 883009197 conserved gate region; other site 883009198 putative PBP binding loops; other site 883009199 ABC-ATPase subunit interface; other site 883009200 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883009201 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 883009202 substrate binding pocket [chemical binding]; other site 883009203 membrane-bound complex binding site; other site 883009204 hinge residues; other site 883009205 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883009206 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 883009207 Walker A/P-loop; other site 883009208 ATP binding site [chemical binding]; other site 883009209 Q-loop/lid; other site 883009210 ABC transporter signature motif; other site 883009211 Walker B; other site 883009212 D-loop; other site 883009213 H-loop/switch region; other site 883009214 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883009215 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 883009216 ATP binding site [chemical binding]; other site 883009217 Mg2+ binding site [ion binding]; other site 883009218 G-X-G motif; other site 883009219 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 883009220 TPR motif; other site 883009221 binding surface 883009222 PilZ domain; Region: PilZ; pfam07238 883009223 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 883009224 active site residue [active] 883009225 YceI-like domain; Region: YceI; pfam04264 883009226 Pirin-related protein [General function prediction only]; Region: COG1741 883009227 Pirin; Region: Pirin; pfam02678 883009228 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 883009229 Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ThrS; COG0441 883009230 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 883009231 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 883009232 TPR repeat; Region: TPR_11; pfam13414 883009233 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 883009234 TPR motif; other site 883009235 binding surface 883009236 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 883009237 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 883009238 IHF dimer interface [polypeptide binding]; other site 883009239 IHF - DNA interface [nucleotide binding]; other site 883009240 Pathogenicity locus; Region: Cdd1; pfam11731 883009241 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 883009242 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 883009243 MOFRL family; Region: MOFRL; pfam05161 883009244 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 883009245 BON domain; Region: BON; pfam04972 883009246 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 883009247 Rubredoxin; Region: Rubredoxin; pfam00301 883009248 iron binding site [ion binding]; other site 883009249 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 883009250 Chromate transporter; Region: Chromate_transp; pfam02417 883009251 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 883009252 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 883009253 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 883009254 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 883009255 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883009256 putative substrate translocation pore; other site 883009257 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883009258 Zn2+ binding site [ion binding]; other site 883009259 Mg2+ binding site [ion binding]; other site 883009260 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 883009261 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883009262 catalytic residue [active] 883009263 glutamate racemase; Provisional; Region: PRK00865 883009264 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 883009265 dimer interface [polypeptide binding]; other site 883009266 pyridoxal binding site [chemical binding]; other site 883009267 ATP binding site [chemical binding]; other site 883009268 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883009269 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 883009270 active site 883009271 catalytic residues [active] 883009272 DNA binding site [nucleotide binding] 883009273 Int/Topo IB signature motif; other site 883009274 TOBE domain; Region: TOBE; cl01440 883009275 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 883009276 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 883009277 histidinol dehydrogenase; Region: hisD; TIGR00069 883009278 NAD binding site [chemical binding]; other site 883009279 dimerization interface [polypeptide binding]; other site 883009280 product binding site; other site 883009281 substrate binding site [chemical binding]; other site 883009282 zinc binding site [ion binding]; other site 883009283 catalytic residues [active] 883009284 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 883009285 ATP binding site [chemical binding]; other site 883009286 active site 883009287 substrate binding site [chemical binding]; other site 883009288 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 883009289 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 883009290 NAD binding site [chemical binding]; other site 883009291 homotetramer interface [polypeptide binding]; other site 883009292 homodimer interface [polypeptide binding]; other site 883009293 substrate binding site [chemical binding]; other site 883009294 active site 883009295 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 883009296 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 883009297 DNA binding site [nucleotide binding] 883009298 active site 883009299 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 883009300 rod shape-determining protein MreB; Provisional; Region: PRK13927 883009301 MreB and similar proteins; Region: MreB_like; cd10225 883009302 nucleotide binding site [chemical binding]; other site 883009303 Mg binding site [ion binding]; other site 883009304 putative protofilament interaction site [polypeptide binding]; other site 883009305 RodZ interaction site [polypeptide binding]; other site 883009306 rod shape-determining protein MreC; Provisional; Region: PRK13922 883009307 rod shape-determining protein MreC; Region: MreC; pfam04085 883009308 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 883009309 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 883009310 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 883009311 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 883009312 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 883009313 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 883009314 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 883009315 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 883009316 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 883009317 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 883009318 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 883009319 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 883009320 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 883009321 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 883009322 beta subunit interaction interface [polypeptide binding]; other site 883009323 Walker A motif; other site 883009324 ATP binding site [chemical binding]; other site 883009325 Walker B motif; other site 883009326 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 883009327 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 883009328 core domain interface [polypeptide binding]; other site 883009329 delta subunit interface [polypeptide binding]; other site 883009330 epsilon subunit interface [polypeptide binding]; other site 883009331 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 883009332 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 883009333 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 883009334 alpha subunit interaction interface [polypeptide binding]; other site 883009335 Walker A motif; other site 883009336 ATP binding site [chemical binding]; other site 883009337 Walker B motif; other site 883009338 inhibitor binding site; inhibition site 883009339 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 883009340 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 883009341 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 883009342 gamma subunit interface [polypeptide binding]; other site 883009343 epsilon subunit interface [polypeptide binding]; other site 883009344 LBP interface [polypeptide binding]; other site 883009345 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 883009346 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 883009347 nucleotide binding site [chemical binding]; other site 883009348 NEF interaction site [polypeptide binding]; other site 883009349 SBD interface [polypeptide binding]; other site 883009350 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 883009351 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 883009352 putative ligand binding site [chemical binding]; other site 883009353 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 883009354 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 883009355 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 883009356 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 883009357 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 883009358 Ligand Binding Site [chemical binding]; other site 883009359 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 883009360 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 883009361 Response regulator receiver domain; Region: Response_reg; pfam00072 883009362 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 883009363 active site 883009364 phosphorylation site [posttranslational modification] 883009365 intermolecular recognition site; other site 883009366 dimerization interface [polypeptide binding]; other site 883009367 Response regulator receiver domain; Region: Response_reg; pfam00072 883009368 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 883009369 active site 883009370 phosphorylation site [posttranslational modification] 883009371 intermolecular recognition site; other site 883009372 dimerization interface [polypeptide binding]; other site 883009373 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 883009374 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883009375 Walker A motif; other site 883009376 ATP binding site [chemical binding]; other site 883009377 Walker B motif; other site 883009378 arginine finger; other site 883009379 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883009380 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 883009381 ATP binding site [chemical binding]; other site 883009382 G-X-G motif; other site 883009383 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 883009384 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 883009385 GIY-YIG motif/motif A; other site 883009386 active site 883009387 catalytic site [active] 883009388 putative DNA binding site [nucleotide binding]; other site 883009389 metal binding site [ion binding]; metal-binding site 883009390 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 883009391 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 883009392 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 883009393 FOG: CBS domain [General function prediction only]; Region: COG0517 883009394 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 883009395 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 883009396 Uncharacterized conserved protein [Function unknown]; Region: COG1284 883009397 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 883009398 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 883009399 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883009400 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 883009401 TPR repeat; Region: TPR_11; pfam13414 883009402 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 883009403 binding surface 883009404 TPR repeat; Region: TPR_11; pfam13414 883009405 TPR motif; other site 883009406 Tetratricopeptide repeat; Region: TPR_12; pfam13424 883009407 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 883009408 binding surface 883009409 TPR motif; other site 883009410 TPR repeat; Region: TPR_11; pfam13414 883009411 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 883009412 putative FMN binding site [chemical binding]; other site 883009413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883009414 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 883009415 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 883009416 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 883009417 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 883009418 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883009419 active site 883009420 short chain dehydrogenase; Provisional; Region: PRK12937 883009421 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 883009422 NADP binding site [chemical binding]; other site 883009423 homodimer interface [polypeptide binding]; other site 883009424 active site 883009425 substrate binding site [chemical binding]; other site 883009426 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 883009427 Response regulator receiver domain; Region: Response_reg; pfam00072 883009428 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 883009429 active site 883009430 phosphorylation site [posttranslational modification] 883009431 intermolecular recognition site; other site 883009432 dimerization interface [polypeptide binding]; other site 883009433 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 883009434 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 883009435 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 883009436 catalytic triad [active] 883009437 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 883009438 cobyric acid synthase; Provisional; Region: PRK00784 883009439 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 883009440 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 883009441 catalytic triad [active] 883009442 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 883009443 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 883009444 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883009445 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883009446 ligand binding site [chemical binding]; other site 883009447 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883009448 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883009449 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 883009450 heterotetramer interface [polypeptide binding]; other site 883009451 active site pocket [active] 883009452 cleavage site 883009453 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 883009454 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 883009455 ATP binding site [chemical binding]; other site 883009456 putative Mg++ binding site [ion binding]; other site 883009457 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 883009458 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 883009459 nucleotide binding region [chemical binding]; other site 883009460 ATP-binding site [chemical binding]; other site 883009461 SEC-C motif; Region: SEC-C; pfam02810 883009462 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 883009463 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 883009464 FAD binding domain; Region: FAD_binding_4; pfam01565 883009465 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883009466 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 883009467 SmpB-tmRNA interface; other site 883009468 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 883009469 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 883009470 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 883009471 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 883009472 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 883009473 dimerization domain swap beta strand [polypeptide binding]; other site 883009474 regulatory protein interface [polypeptide binding]; other site 883009475 active site 883009476 regulatory phosphorylation site [posttranslational modification]; other site 883009477 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 883009478 Predicted methyltransferases [General function prediction only]; Region: COG0313 883009479 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 883009480 putative SAM binding site [chemical binding]; other site 883009481 putative homodimer interface [polypeptide binding]; other site 883009482 hypothetical protein; Provisional; Region: PRK14680 883009483 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 883009484 RNA/DNA hybrid binding site [nucleotide binding]; other site 883009485 active site 883009486 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 883009487 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 883009488 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 883009489 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 883009490 RimM N-terminal domain; Region: RimM; pfam01782 883009491 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 883009492 hypothetical protein; Provisional; Region: PRK00468 883009493 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 883009494 signal recognition particle protein; Provisional; Region: PRK10867 883009495 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 883009496 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 883009497 P loop; other site 883009498 GTP binding site [chemical binding]; other site 883009499 Signal peptide binding domain; Region: SRP_SPB; pfam02978 883009500 aspartate aminotransferase; Provisional; Region: PRK06836 883009501 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 883009502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009503 homodimer interface [polypeptide binding]; other site 883009504 catalytic residue [active] 883009505 Chorismate mutase type II; Region: CM_2; smart00830 883009506 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 883009507 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 883009508 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 883009509 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 883009510 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 883009511 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 883009512 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883009513 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 883009514 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 883009515 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 883009516 tricarballylate utilization protein B; Provisional; Region: PRK15033 883009517 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883009518 hypothetical protein; Provisional; Region: PRK11281 883009519 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 883009520 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 883009521 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 883009522 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 883009523 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 883009524 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 883009525 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 883009526 FeS/SAM binding site; other site 883009527 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 883009528 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 883009529 dimer interface [polypeptide binding]; other site 883009530 active site 883009531 Schiff base residues; other site 883009532 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 883009533 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 883009534 FeS/SAM binding site; other site 883009535 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 883009536 Family of unknown function (DUF490); Region: DUF490; pfam04357 883009537 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 883009538 Surface antigen; Region: Bac_surface_Ag; pfam01103 883009539 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 883009540 Yip1 domain; Region: Yip1; pfam04893 883009541 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 883009542 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 883009543 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883009544 Flagellar protein FliS; Region: FliS; cl00654 883009545 flagellar capping protein; Validated; Region: fliD; PRK07737 883009546 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 883009547 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 883009548 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 883009549 Glycoprotease family; Region: Peptidase_M22; pfam00814 883009550 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 883009551 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 883009552 active site 883009553 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 883009554 protein binding site [polypeptide binding]; other site 883009555 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 883009556 putative substrate binding region [chemical binding]; other site 883009557 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 883009558 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 883009559 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 883009560 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 883009561 tyrosine decarboxylase; Region: PLN02880 883009562 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 883009563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883009564 catalytic residue [active] 883009565 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 883009566 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 883009567 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 883009568 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 883009569 catalytic residue [active] 883009570 putative FPP diphosphate binding site; other site 883009571 putative FPP binding hydrophobic cleft; other site 883009572 dimer interface [polypeptide binding]; other site 883009573 putative IPP diphosphate binding site; other site 883009574 ribosome recycling factor; Reviewed; Region: frr; PRK00083 883009575 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 883009576 hinge region; other site 883009577 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 883009578 putative nucleotide binding site [chemical binding]; other site 883009579 uridine monophosphate binding site [chemical binding]; other site 883009580 homohexameric interface [polypeptide binding]; other site 883009581 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883009582 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 883009583 putative metal binding site; other site 883009584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883009585 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883009586 NAD(P) binding site [chemical binding]; other site 883009587 active site 883009588 elongation factor Ts; Reviewed; Region: tsf; PRK12332 883009589 UBA/TS-N domain; Region: UBA; pfam00627 883009590 Elongation factor TS; Region: EF_TS; pfam00889 883009591 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 883009592 rRNA interaction site [nucleotide binding]; other site 883009593 S8 interaction site; other site 883009594 putative laminin-1 binding site; other site 883009595 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 883009596 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 883009597 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 883009598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883009599 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 883009600 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 883009601 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 883009602 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 883009603 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 883009604 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 883009605 Transcriptional regulators [Transcription]; Region: GntR; COG1802 883009606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883009607 DNA-binding site [nucleotide binding]; DNA binding site 883009608 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 883009609 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 883009610 elongation factor G; Reviewed; Region: PRK12740 883009611 G1 box; other site 883009612 putative GEF interaction site [polypeptide binding]; other site 883009613 GTP/Mg2+ binding site [chemical binding]; other site 883009614 Switch I region; other site 883009615 G2 box; other site 883009616 G3 box; other site 883009617 Switch II region; other site 883009618 G4 box; other site 883009619 G5 box; other site 883009620 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 883009621 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 883009622 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 883009623 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 883009624 catalytic residues [active] 883009625 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 883009626 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 883009627 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 883009628 substrate binding site [chemical binding]; other site 883009629 ATP binding site [chemical binding]; other site 883009630 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 883009631 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 883009632 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 883009633 minor groove reading motif; other site 883009634 helix-hairpin-helix signature motif; other site 883009635 substrate binding pocket [chemical binding]; other site 883009636 active site 883009637 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 883009638 RNase_H superfamily; Region: RNase_H_2; pfam13482 883009639 active site 883009640 substrate binding site [chemical binding]; other site 883009641 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 883009642 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883009643 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 883009644 active site 883009645 phosphorylation site [posttranslational modification] 883009646 intermolecular recognition site; other site 883009647 dimerization interface [polypeptide binding]; other site 883009648 PilZ domain; Region: PilZ; pfam07238 883009649 S-adenosylmethionine synthetase; Validated; Region: PRK05250 883009650 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 883009651 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 883009652 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 883009653 pantoate--beta-alanine ligase; Region: panC; TIGR00018 883009654 Pantoate-beta-alanine ligase; Region: PanC; cd00560 883009655 active site 883009656 ATP-binding site [chemical binding]; other site 883009657 pantoate-binding site; other site 883009658 HXXH motif; other site 883009659 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 883009660 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 883009661 catalytic site [active] 883009662 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 883009663 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 883009664 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 883009665 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 883009666 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 883009667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883009668 Helix-turn-helix domain; Region: HTH_18; pfam12833 883009669 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 883009670 oligomerization interface [polypeptide binding]; other site 883009671 active site 883009672 metal binding site [ion binding]; metal-binding site 883009673 flagellin; Provisional; Region: PRK12802 883009674 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883009675 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883009676 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 883009677 HD domain; Region: HD_3; pfam13023 883009678 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883009679 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 883009680 FtsX-like permease family; Region: FtsX; pfam02687 883009681 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883009682 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 883009683 FtsX-like permease family; Region: FtsX; pfam02687 883009684 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883009685 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883009686 Walker A/P-loop; other site 883009687 ATP binding site [chemical binding]; other site 883009688 Q-loop/lid; other site 883009689 ABC transporter signature motif; other site 883009690 Walker B; other site 883009691 D-loop; other site 883009692 H-loop/switch region; other site 883009693 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883009694 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 883009695 HlyD family secretion protein; Region: HlyD_3; pfam13437 883009696 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883009697 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 883009698 putative dimer interface [polypeptide binding]; other site 883009699 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883009700 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 883009701 putative dimer interface [polypeptide binding]; other site 883009702 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 883009703 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 883009704 Cl binding site [ion binding]; other site 883009705 oligomer interface [polypeptide binding]; other site 883009706 Survival protein SurE; Region: SurE; cl00448 883009707 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 883009708 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883009709 putative active site [active] 883009710 heme pocket [chemical binding]; other site 883009711 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 883009712 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 883009713 putative active site [active] 883009714 heme pocket [chemical binding]; other site 883009715 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 883009716 putative active site [active] 883009717 heme pocket [chemical binding]; other site 883009718 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883009719 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 883009720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883009721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883009722 metal binding site [ion binding]; metal-binding site 883009723 active site 883009724 I-site; other site 883009725 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 883009726 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 883009727 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 883009728 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 883009729 Predicted permeases [General function prediction only]; Region: RarD; COG2962 883009730 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 883009731 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 883009732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883009733 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883009734 Walker A/P-loop; other site 883009735 ATP binding site [chemical binding]; other site 883009736 Q-loop/lid; other site 883009737 ABC transporter signature motif; other site 883009738 Walker B; other site 883009739 D-loop; other site 883009740 H-loop/switch region; other site 883009741 TOBE domain; Region: TOBE_2; pfam08402 883009742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 883009743 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 883009744 ABC-ATPase subunit interface; other site 883009745 putative PBP binding loops; other site 883009746 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 883009747 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 883009748 dimer interface [polypeptide binding]; other site 883009749 conserved gate region; other site 883009750 putative PBP binding loops; other site 883009751 ABC-ATPase subunit interface; other site 883009752 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 883009753 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 883009754 active site 883009755 catalytic site [active] 883009756 Predicted transcriptional regulators [Transcription]; Region: COG1733 883009757 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 883009758 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 883009759 putative FMN binding site [chemical binding]; other site 883009760 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 883009761 active site 1 [active] 883009762 dimer interface [polypeptide binding]; other site 883009763 hexamer interface [polypeptide binding]; other site 883009764 active site 2 [active] 883009765 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 883009766 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 883009767 active site 883009768 FMN binding site [chemical binding]; other site 883009769 substrate binding site [chemical binding]; other site 883009770 putative catalytic residue [active] 883009771 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 883009772 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 883009773 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 883009774 active site residue [active] 883009775 VanZ like family; Region: VanZ; pfam04892 883009776 SlyX; Region: SlyX; cl01090 883009777 EVE domain; Region: EVE; cl00728 883009778 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 883009779 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 883009780 PAS domain S-box; Region: sensory_box; TIGR00229 883009781 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 883009782 putative active site [active] 883009783 heme pocket [chemical binding]; other site 883009784 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 883009785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883009786 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 883009787 dimer interface [polypeptide binding]; other site 883009788 phosphorylation site [posttranslational modification] 883009789 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 883009790 ATP binding site [chemical binding]; other site 883009791 Mg2+ binding site [ion binding]; other site 883009792 G-X-G motif; other site 883009793 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883009794 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 883009795 active site 883009796 phosphorylation site [posttranslational modification] 883009797 intermolecular recognition site; other site 883009798 dimerization interface [polypeptide binding]; other site 883009799 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 883009800 Ca2+ binding site [ion binding]; other site 883009801 Cache domain; Region: Cache_1; pfam02743 883009802 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 883009803 dimerization interface [polypeptide binding]; other site 883009804 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883009805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883009806 dimer interface [polypeptide binding]; other site 883009807 putative CheW interface [polypeptide binding]; other site 883009808 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 883009809 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 883009810 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883009811 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 883009812 FeS/SAM binding site; other site 883009813 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 883009814 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 883009815 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 883009816 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883009817 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 883009818 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 883009819 motif II; other site 883009820 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 883009821 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 883009822 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 883009823 dimer interface [polypeptide binding]; other site 883009824 putative anticodon binding site; other site 883009825 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 883009826 motif 1; other site 883009827 active site 883009828 motif 2; other site 883009829 motif 3; other site 883009830 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 883009831 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883009832 FtsX-like permease family; Region: FtsX; pfam02687 883009833 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 883009834 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883009835 Walker A/P-loop; other site 883009836 ATP binding site [chemical binding]; other site 883009837 Q-loop/lid; other site 883009838 ABC transporter signature motif; other site 883009839 Walker B; other site 883009840 D-loop; other site 883009841 H-loop/switch region; other site 883009842 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 883009843 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 883009844 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 883009845 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 883009846 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 883009847 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 883009848 Surface antigen; Region: Bac_surface_Ag; pfam01103 883009849 AMIN domain; Region: AMIN; pfam11741 883009850 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 883009851 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 883009852 active site 883009853 metal binding site [ion binding]; metal-binding site 883009854 periplasmic chaperone; Provisional; Region: PRK10780 883009855 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 883009856 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 883009857 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 883009858 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 883009859 trimer interface [polypeptide binding]; other site 883009860 active site 883009861 UDP-GlcNAc binding site [chemical binding]; other site 883009862 lipid binding site [chemical binding]; lipid-binding site 883009863 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 883009864 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 883009865 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 883009866 active site 883009867 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 883009868 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 883009869 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 883009870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009871 homodimer interface [polypeptide binding]; other site 883009872 catalytic residue [active] 883009873 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 883009874 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 883009875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883009876 DNA-binding site [nucleotide binding]; DNA binding site 883009877 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 883009878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009879 homodimer interface [polypeptide binding]; other site 883009880 catalytic residue [active] 883009881 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 883009882 substrate binding site [chemical binding]; other site 883009883 multimerization interface [polypeptide binding]; other site 883009884 ATP binding site [chemical binding]; other site 883009885 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 883009886 thiamine phosphate binding site [chemical binding]; other site 883009887 active site 883009888 pyrophosphate binding site [ion binding]; other site 883009889 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 883009890 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 883009891 FAD binding pocket [chemical binding]; other site 883009892 FAD binding motif [chemical binding]; other site 883009893 phosphate binding motif [ion binding]; other site 883009894 beta-alpha-beta structure motif; other site 883009895 NAD binding pocket [chemical binding]; other site 883009896 GAF domain; Region: GAF; cl17456 883009897 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 883009898 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883009899 Walker A motif; other site 883009900 ATP binding site [chemical binding]; other site 883009901 Walker B motif; other site 883009902 arginine finger; other site 883009903 HDOD domain; Region: HDOD; pfam08668 883009904 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 883009905 CotH protein; Region: CotH; pfam08757 883009906 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 883009907 putative active site; other site 883009908 putative metal binding residues [ion binding]; other site 883009909 putative triphosphate binding site [ion binding]; other site 883009910 signature motif; other site 883009911 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 883009912 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 883009913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009914 homodimer interface [polypeptide binding]; other site 883009915 catalytic residue [active] 883009916 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883009917 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 883009918 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883009919 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 883009920 putative ADP-binding pocket [chemical binding]; other site 883009921 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 883009922 O-Antigen ligase; Region: Wzy_C; pfam04932 883009923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883009924 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 883009925 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883009926 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 883009927 active site 883009928 phosphorylation site [posttranslational modification] 883009929 intermolecular recognition site; other site 883009930 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 883009931 Walker A motif; other site 883009932 ATP binding site [chemical binding]; other site 883009933 Walker B motif; other site 883009934 arginine finger; other site 883009935 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 883009936 aconitate hydratase; Validated; Region: PRK07229 883009937 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 883009938 substrate binding site [chemical binding]; other site 883009939 ligand binding site [chemical binding]; other site 883009940 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 883009941 substrate binding site [chemical binding]; other site 883009942 SurA N-terminal domain; Region: SurA_N_3; cl07813 883009943 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 883009944 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 883009945 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 883009946 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 883009947 Nitrogen regulatory protein P-II; Region: P-II; smart00938 883009948 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 883009949 active site 883009950 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 883009951 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 883009952 putative ligand binding site [chemical binding]; other site 883009953 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 883009954 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 883009955 TM-ABC transporter signature motif; other site 883009956 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 883009957 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 883009958 TM-ABC transporter signature motif; other site 883009959 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 883009960 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 883009961 Walker A/P-loop; other site 883009962 ATP binding site [chemical binding]; other site 883009963 Q-loop/lid; other site 883009964 ABC transporter signature motif; other site 883009965 Walker B; other site 883009966 D-loop; other site 883009967 H-loop/switch region; other site 883009968 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 883009969 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 883009970 intracellular protease, PfpI family; Region: PfpI; TIGR01382 883009971 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 883009972 conserved cys residue [active] 883009973 Dienelactone hydrolase family; Region: DLH; pfam01738 883009974 Predicted periplasmic protein [Function unknown]; Region: COG3698 883009975 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 883009976 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 883009977 FAD binding site [chemical binding]; other site 883009978 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883009979 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 883009980 putative active site [active] 883009981 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 883009982 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 883009983 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 883009984 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883009985 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883009986 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 883009987 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 883009988 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 883009989 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 883009990 active site 883009991 CoA binding domain; Region: CoA_binding; cl17356 883009992 Flagellin N-methylase; Region: FliB; pfam03692 883009993 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 883009994 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 883009995 HSP70 interaction site [polypeptide binding]; other site 883009996 EamA-like transporter family; Region: EamA; pfam00892 883009997 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 883009998 EamA-like transporter family; Region: EamA; pfam00892 883009999 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 883010000 homotrimer interface [polypeptide binding]; other site 883010001 Walker A motif; other site 883010002 GTP binding site [chemical binding]; other site 883010003 Walker B motif; other site 883010004 Protein of unknown function (DUF554); Region: DUF554; pfam04474 883010005 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 883010006 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 883010007 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 883010008 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 883010009 LabA_like proteins; Region: LabA_like; cd06167 883010010 putative metal binding site [ion binding]; other site 883010011 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 883010012 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 883010013 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 883010014 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 883010015 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 883010016 FeS/SAM binding site; other site 883010017 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 883010018 Phosphotransferase enzyme family; Region: APH; pfam01636 883010019 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 883010020 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 883010021 DEAD-like helicases superfamily; Region: DEXDc; smart00487 883010022 ATP binding site [chemical binding]; other site 883010023 Mg++ binding site [ion binding]; other site 883010024 motif III; other site 883010025 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 883010026 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 883010027 nucleotide binding region [chemical binding]; other site 883010028 ATP-binding site [chemical binding]; other site 883010029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 883010030 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 883010031 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883010032 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883010033 dimer interface [polypeptide binding]; other site 883010034 putative CheW interface [polypeptide binding]; other site 883010035 ABC transporter ATPase component; Reviewed; Region: PRK11147 883010036 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883010037 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883010038 ABC transporter; Region: ABC_tran_2; pfam12848 883010039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 883010040 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 883010041 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 883010042 oligomerisation interface [polypeptide binding]; other site 883010043 mobile loop; other site 883010044 roof hairpin; other site 883010045 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 883010046 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 883010047 ring oligomerisation interface [polypeptide binding]; other site 883010048 ATP/Mg binding site [chemical binding]; other site 883010049 stacking interactions; other site 883010050 hinge regions; other site 883010051 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 883010052 motif I; other site 883010053 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 883010054 motif II; other site 883010055 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 883010056 PilZ domain; Region: PilZ; pfam07238 883010057 Response regulator receiver domain; Region: Response_reg; pfam00072 883010058 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 883010059 active site 883010060 phosphorylation site [posttranslational modification] 883010061 intermolecular recognition site; other site 883010062 dimerization interface [polypeptide binding]; other site 883010063 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 883010064 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883010065 Walker A motif; other site 883010066 ATP binding site [chemical binding]; other site 883010067 Walker B motif; other site 883010068 arginine finger; other site 883010069 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 883010070 dimerization interface [polypeptide binding]; other site 883010071 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883010072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883010073 dimer interface [polypeptide binding]; other site 883010074 putative CheW interface [polypeptide binding]; other site 883010075 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 883010076 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 883010077 active site 883010078 phosphorylation site [posttranslational modification] 883010079 intermolecular recognition site; other site 883010080 dimerization interface [polypeptide binding]; other site 883010081 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883010082 Zn2+ binding site [ion binding]; other site 883010083 Mg2+ binding site [ion binding]; other site 883010084 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 883010085 HDOD domain; Region: HDOD; pfam08668 883010086 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 883010087 Colicin V production protein; Region: Colicin_V; pfam02674 883010088 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 883010089 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 883010090 homodimer interface [polypeptide binding]; other site 883010091 metal binding site [ion binding]; metal-binding site 883010092 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 883010093 homodimer interface [polypeptide binding]; other site 883010094 active site 883010095 putative chemical substrate binding site [chemical binding]; other site 883010096 metal binding site [ion binding]; metal-binding site 883010097 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 883010098 Domain of unknown function DUF20; Region: UPF0118; pfam01594 883010099 PAS domain; Region: PAS_9; pfam13426 883010100 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 883010101 PAS domain; Region: PAS_9; pfam13426 883010102 putative active site [active] 883010103 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883010104 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883010105 metal binding site [ion binding]; metal-binding site 883010106 active site 883010107 I-site; other site 883010108 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 883010109 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 883010110 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 883010111 Walker A motif; other site 883010112 ATP binding site [chemical binding]; other site 883010113 Walker B motif; other site 883010114 arginine finger; other site 883010115 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883010116 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 883010117 hypothetical protein; Reviewed; Region: PRK00024 883010118 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 883010119 MPN+ (JAMM) motif; other site 883010120 Zinc-binding site [ion binding]; other site 883010121 DNA polymerase III, delta subunit; Region: holA; TIGR01128 883010122 Lipopolysaccharide-assembly; Region: LptE; pfam04390 883010123 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 883010124 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 883010125 HIGH motif; other site 883010126 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 883010127 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 883010128 active site 883010129 KMSKS motif; other site 883010130 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 883010131 tRNA binding surface [nucleotide binding]; other site 883010132 transcription antitermination factor NusB; Region: nusB; TIGR01951 883010133 putative RNA binding site [nucleotide binding]; other site 883010134 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 883010135 homopentamer interface [polypeptide binding]; other site 883010136 active site 883010137 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 883010138 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 883010139 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 883010140 dimerization interface [polypeptide binding]; other site 883010141 active site 883010142 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 883010143 Lumazine binding domain; Region: Lum_binding; pfam00677 883010144 Lumazine binding domain; Region: Lum_binding; pfam00677 883010145 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 883010146 catalytic motif [active] 883010147 Zn binding site [ion binding]; other site 883010148 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 883010149 RibD C-terminal domain; Region: RibD_C; cl17279 883010150 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 883010151 catalytic motif [active] 883010152 Zn binding site [ion binding]; other site 883010153 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 883010154 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 883010155 dimer interface [polypeptide binding]; other site 883010156 active site 883010157 glycine-pyridoxal phosphate binding site [chemical binding]; other site 883010158 folate binding site [chemical binding]; other site 883010159 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 883010160 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 883010161 dimer interface [polypeptide binding]; other site 883010162 active site 883010163 acyl carrier protein; Provisional; Region: acpP; PRK00982 883010164 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 883010165 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 883010166 NAD(P) binding site [chemical binding]; other site 883010167 homotetramer interface [polypeptide binding]; other site 883010168 homodimer interface [polypeptide binding]; other site 883010169 active site 883010170 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 883010171 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 883010172 dimer interface [polypeptide binding]; other site 883010173 active site 883010174 CoA binding pocket [chemical binding]; other site 883010175 putative phosphate acyltransferase; Provisional; Region: PRK05331 883010176 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 883010177 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 883010178 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 883010179 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 883010180 Rhomboid family; Region: Rhomboid; cl11446 883010181 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 883010182 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 883010183 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 883010184 Domain of unknown function DUF77; Region: DUF77; pfam01910 883010185 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 883010186 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 883010187 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 883010188 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 883010189 4Fe-4S binding domain; Region: Fer4; pfam00037 883010190 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 883010191 putative FMN binding site [chemical binding]; other site 883010192 Cache domain; Region: Cache_1; pfam02743 883010193 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 883010194 PAS domain; Region: PAS_9; pfam13426 883010195 putative active site [active] 883010196 heme pocket [chemical binding]; other site 883010197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883010198 dimer interface [polypeptide binding]; other site 883010199 putative CheW interface [polypeptide binding]; other site 883010200 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 883010201 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 883010202 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 883010203 YcaO-like family; Region: YcaO; pfam02624 883010204 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 883010205 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 883010206 catalytic residues [active] 883010207 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 883010208 putative active site pocket [active] 883010209 4-fold oligomerization interface [polypeptide binding]; other site 883010210 metal binding residues [ion binding]; metal-binding site 883010211 3-fold/trimer interface [polypeptide binding]; other site 883010212 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 883010213 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 883010214 GMP synthase; Reviewed; Region: guaA; PRK00074 883010215 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 883010216 AMP/PPi binding site [chemical binding]; other site 883010217 candidate oxyanion hole; other site 883010218 catalytic triad [active] 883010219 potential glutamine specificity residues [chemical binding]; other site 883010220 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 883010221 ATP Binding subdomain [chemical binding]; other site 883010222 Ligand Binding sites [chemical binding]; other site 883010223 Dimerization subdomain; other site 883010224 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 883010225 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 883010226 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 883010227 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 883010228 active site 883010229 TPR repeat; Region: TPR_11; pfam13414 883010230 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 883010231 binding surface 883010232 TPR motif; other site 883010233 TPR repeat; Region: TPR_11; pfam13414 883010234 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 883010235 CcmB protein; Region: CcmB; cl17444 883010236 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 883010237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 883010238 Walker A/P-loop; other site 883010239 ATP binding site [chemical binding]; other site 883010240 Q-loop/lid; other site 883010241 ABC transporter signature motif; other site 883010242 Walker B; other site 883010243 D-loop; other site 883010244 H-loop/switch region; other site 883010245 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 883010246 CcmE; Region: CcmE; cl00994 883010247 Domain of unknown function DUF21; Region: DUF21; pfam01595 883010248 FOG: CBS domain [General function prediction only]; Region: COG0517 883010249 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 883010250 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 883010251 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 883010252 active site 883010253 motif I; other site 883010254 motif II; other site 883010255 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883010256 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 883010257 putative active site [active] 883010258 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 883010259 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 883010260 Walker A/P-loop; other site 883010261 ATP binding site [chemical binding]; other site 883010262 Q-loop/lid; other site 883010263 ABC transporter signature motif; other site 883010264 Walker B; other site 883010265 D-loop; other site 883010266 H-loop/switch region; other site 883010267 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 883010268 cobalt transport protein CbiM; Validated; Region: PRK06265 883010269 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 883010270 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 883010271 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 883010272 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 883010273 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 883010274 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 883010275 Probable Catalytic site; other site 883010276 metal-binding site 883010277 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883010278 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 883010279 active site 883010280 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 883010281 active site 883010282 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 883010283 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 883010284 Glucose inhibited division protein A; Region: GIDA; pfam01134 883010285 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 883010286 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883010287 substrate binding pocket [chemical binding]; other site 883010288 membrane-bound complex binding site; other site 883010289 hinge residues; other site 883010290 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 883010291 putative homodimer interface [polypeptide binding]; other site 883010292 putative active site pocket [active] 883010293 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 883010294 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 883010295 trimer interface [polypeptide binding]; other site 883010296 active site 883010297 acetylornithine aminotransferase; Provisional; Region: PRK02627 883010298 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 883010299 inhibitor-cofactor binding pocket; inhibition site 883010300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883010301 catalytic residue [active] 883010302 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883010303 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 883010304 Walker A/P-loop; other site 883010305 ATP binding site [chemical binding]; other site 883010306 Q-loop/lid; other site 883010307 ABC transporter signature motif; other site 883010308 Walker B; other site 883010309 D-loop; other site 883010310 H-loop/switch region; other site 883010311 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883010312 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 883010313 substrate binding pocket [chemical binding]; other site 883010314 membrane-bound complex binding site; other site 883010315 hinge residues; other site 883010316 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883010317 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 883010318 dimer interface [polypeptide binding]; other site 883010319 conserved gate region; other site 883010320 putative PBP binding loops; other site 883010321 ABC-ATPase subunit interface; other site 883010322 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 883010323 dimer interface [polypeptide binding]; other site 883010324 conserved gate region; other site 883010325 putative PBP binding loops; other site 883010326 ABC-ATPase subunit interface; other site 883010327 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 883010328 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 883010329 S-adenosylmethionine binding site [chemical binding]; other site 883010330 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 883010331 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 883010332 minor groove reading motif; other site 883010333 helix-hairpin-helix signature motif; other site 883010334 substrate binding pocket [chemical binding]; other site 883010335 active site 883010336 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 883010337 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 883010338 Peptidase family M23; Region: Peptidase_M23; pfam01551 883010339 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 883010340 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 883010341 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 883010342 protein binding site [polypeptide binding]; other site 883010343 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 883010344 Catalytic dyad [active] 883010345 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 883010346 NodB motif; other site 883010347 putative active site [active] 883010348 putative catalytic site [active] 883010349 Zn binding site [ion binding]; other site 883010350 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 883010351 active site 883010352 multimer interface [polypeptide binding]; other site 883010353 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 883010354 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 883010355 Smr domain; Region: Smr; pfam01713 883010356 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 883010357 tandem repeat interface [polypeptide binding]; other site 883010358 oligomer interface [polypeptide binding]; other site 883010359 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 883010360 active site residues [active] 883010361 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 883010362 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 883010363 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 883010364 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 883010365 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 883010366 Tetratricopeptide repeat; Region: TPR_16; pfam13432 883010367 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 883010368 TPR motif; other site 883010369 binding surface 883010370 AMIN domain; Region: AMIN; pfam11741 883010371 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 883010372 metal-binding site [ion binding] 883010373 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 883010374 metal-binding site [ion binding] 883010375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 883010376 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 883010377 metal-binding site [ion binding] 883010378 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883010379 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 883010380 motif II; other site 883010381 Eukaryotic UGPase catalyses the synthesis of UDP-Glucose; Region: UGPase_euk; cd00897 883010382 active site 883010383 substrate binding site; other site 883010384 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 883010385 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 883010386 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; cl17355 883010387 DNA binding site [nucleotide binding] 883010388 Rubrerythrin [Energy production and conversion]; Region: COG1592 883010389 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 883010390 binuclear metal center [ion binding]; other site 883010391 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 883010392 iron binding site [ion binding]; other site 883010393 DNA topoisomerase III; Provisional; Region: PRK07726 883010394 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 883010395 active site 883010396 putative interdomain interaction site [polypeptide binding]; other site 883010397 putative metal-binding site [ion binding]; other site 883010398 putative nucleotide binding site [chemical binding]; other site 883010399 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 883010400 domain I; other site 883010401 phosphate binding site [ion binding]; other site 883010402 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 883010403 domain II; other site 883010404 domain III; other site 883010405 nucleotide binding site [chemical binding]; other site 883010406 DNA binding groove [nucleotide binding] 883010407 catalytic site [active] 883010408 domain IV; other site 883010409 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 883010410 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 883010411 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 883010412 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 883010413 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 883010414 putative active site [active] 883010415 OsmC-like protein; Region: OsmC; pfam02566 883010416 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 883010417 Cache domain; Region: Cache_1; pfam02743 883010418 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883010419 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 883010420 dimer interface [polypeptide binding]; other site 883010421 putative CheW interface [polypeptide binding]; other site 883010422 Domain of unknown function (DUF386); Region: DUF386; cl01047 883010423 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 883010424 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 883010425 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 883010426 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 883010427 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883010428 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 883010429 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 883010430 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 883010431 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 883010432 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 883010433 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 883010434 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883010435 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 883010436 NADH dehydrogenase; Region: NADHdh; cl00469 883010437 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 883010438 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883010439 hydrogenase 4 subunit D; Validated; Region: PRK06525 883010440 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 883010441 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 883010442 DsrE/DsrF-like family; Region: DrsE; cl00672 883010443 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 883010444 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 883010445 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 883010446 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 883010447 S-adenosylmethionine binding site [chemical binding]; other site 883010448 hypothetical protein; Validated; Region: PRK00110 883010449 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 883010450 active site 883010451 putative DNA-binding cleft [nucleotide binding]; other site 883010452 dimer interface [polypeptide binding]; other site 883010453 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 883010454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 883010455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883010456 metal binding site [ion binding]; metal-binding site 883010457 active site 883010458 I-site; other site 883010459 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 883010460 RuvA N terminal domain; Region: RuvA_N; pfam01330 883010461 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 883010462 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 883010463 Walker A motif; other site 883010464 ATP binding site [chemical binding]; other site 883010465 Walker B motif; other site 883010466 arginine finger; other site 883010467 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 883010468 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847