-- dump date 20120504_143451 -- class Genbank::misc_feature -- table misc_feature_note -- id note 883000001 hypothetical protein; Validated; Region: PRK06672 883000002 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 883000003 Walker A motif; other site 883000004 ATP binding site [chemical binding]; other site 883000005 Walker B motif; other site 883000006 arginine finger; other site 883000007 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 883000008 DnaA box-binding interface [nucleotide binding]; other site 883000009 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 883000010 non-specific DNA binding site [nucleotide binding]; other site 883000011 salt bridge; other site 883000012 sequence-specific DNA binding site [nucleotide binding]; other site 883000013 Cupin domain; Region: Cupin_2; cl09118 883000014 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 883000015 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883000016 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 883000017 YcaO-like family; Region: YcaO; cl09146 883000018 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 883000019 binding surface 883000020 TPR motif; other site 883000021 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 883000022 S-adenosylmethionine binding site [chemical binding]; other site 883000023 Domain of unknown function DUF302; Region: DUF302; cl01364 883000024 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883000025 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 883000026 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 883000027 Domain of unknown function (DUF814); Region: DUF814; pfam05670 883000028 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; cl00290 883000029 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 883000030 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 883000031 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 883000032 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 883000033 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 883000034 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 883000035 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 883000036 hypothetical protein; Provisional; Region: PRK08185 883000037 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 883000038 intersubunit interface [polypeptide binding]; other site 883000039 active site 883000040 zinc binding site [ion binding]; other site 883000041 Na+ binding site [ion binding]; other site 883000042 hypothetical protein; Provisional; Region: PRK05849 883000043 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883000044 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883000045 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883000046 conserved cys residue [active] 883000047 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 883000048 active site 883000049 metal-binding site 883000050 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 883000051 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 883000052 S-adenosylmethionine binding site [chemical binding]; other site 883000053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000054 active site 883000055 Survival protein SurE; Region: SurE; cl00448 883000056 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 883000057 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 inactive in...; Region: YhaM_OBF_like; cd04492 883000058 generic binding surface I; other site 883000059 generic binding surface II; other site 883000060 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 883000061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883000062 Zn2+ binding site [ion binding]; other site 883000063 Mg2+ binding site [ion binding]; other site 883000064 thymidylate kinase; Validated; Region: tmk; PRK00698 883000065 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 883000066 TMP-binding site; other site 883000067 ATP-binding site [chemical binding]; other site 883000068 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 883000069 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 883000070 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 883000071 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 883000072 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883000073 CoA-ligase; Region: Ligase_CoA; pfam00549 883000074 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 883000075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000076 CoA-ligase; Region: Ligase_CoA; pfam00549 883000077 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 883000078 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 883000079 dimer interface [polypeptide binding]; other site 883000080 PYR/PP interface [polypeptide binding]; other site 883000081 TPP binding site [chemical binding]; other site 883000082 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 883000083 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 883000084 TPP-binding site [chemical binding]; other site 883000085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883000086 metal binding site [ion binding]; metal-binding site 883000087 active site 883000088 I-site; other site 883000089 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883000090 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883000091 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 883000092 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 883000093 Domain of unknown function DUF140; Region: DUF140; cl00510 883000094 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883000095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000096 Walker A/P-loop; other site 883000097 ATP binding site [chemical binding]; other site 883000098 Q-loop/lid; other site 883000099 ABC transporter signature motif; other site 883000100 Walker B; other site 883000101 D-loop; other site 883000102 H-loop/switch region; other site 883000103 mce related protein; Region: MCE; cl15431 883000104 Proteins of 100 residues with WXG; Region: WXG100; cl02005 883000105 Protein of unknown function (DUF330); Region: DUF330; cl01135 883000106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883000107 metal binding site [ion binding]; metal-binding site 883000108 active site 883000109 I-site; other site 883000110 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883000111 DNA binding residues [nucleotide binding] 883000112 ApbE family; Region: ApbE; cl00643 883000113 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 883000114 putative catalytic site [active] 883000115 putative metal binding site [ion binding]; other site 883000116 putative phosphate binding site [ion binding]; other site 883000117 ornithine carbamoyltransferase; Provisional; Region: PRK00779 883000118 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 883000119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000120 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 883000121 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 883000122 ANP binding site [chemical binding]; other site 883000123 Substrate Binding Site II [chemical binding]; other site 883000124 Substrate Binding Site I [chemical binding]; other site 883000125 argininosuccinate lyase; Provisional; Region: PRK00855 883000126 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 883000127 active sites [active] 883000128 tetramer interface [polypeptide binding]; other site 883000129 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 883000130 RNA/DNA binding site [nucleotide binding]; other site 883000131 RRM dimerization site [polypeptide binding]; other site 883000132 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 883000133 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883000134 substrate binding pocket [chemical binding]; other site 883000135 membrane-bound complex binding site; other site 883000136 hinge residues; other site 883000137 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 883000138 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; cl15306 883000139 substrate binding pocket [chemical binding]; other site 883000140 membrane-bound complex binding site; other site 883000141 hinge residues; other site 883000142 FtsH Extracellular; Region: FtsH_ext; pfam06480 883000143 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 883000144 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 883000145 Walker A motif; other site 883000146 ATP binding site [chemical binding]; other site 883000147 Walker B motif; other site 883000148 arginine finger; other site 883000149 Peptidase family M41; Region: Peptidase_M41; pfam01434 883000150 dihydropteroate synthase; Region: DHPS; TIGR01496 883000151 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 883000152 substrate binding pocket [chemical binding]; other site 883000153 dimer interface [polypeptide binding]; other site 883000154 inhibitor binding site; inhibition site 883000155 TIGR00159 family protein; Region: TIGR00159 883000156 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 883000157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 883000158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 883000159 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 883000160 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 883000161 active site 883000162 substrate binding site [chemical binding]; other site 883000163 metal binding site [ion binding]; metal-binding site 883000164 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 883000165 active site 883000166 tetramer interface; other site 883000167 primosome assembly protein PriA; Validated; Region: PRK05580 883000168 primosome assembly protein PriA; Validated; Region: PRK05580 883000169 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 883000170 ATP binding site [chemical binding]; other site 883000171 putative Mg++ binding site [ion binding]; other site 883000172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000173 Response regulator receiver domain; Region: Response_reg; pfam00072 883000174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883000175 active site 883000176 phosphorylation site [posttranslational modification] 883000177 intermolecular recognition site; other site 883000178 dimerization interface [polypeptide binding]; other site 883000179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883000180 active site 883000181 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883000182 phosphorylation site [posttranslational modification] 883000183 intermolecular recognition site; other site 883000184 dimerization interface [polypeptide binding]; other site 883000185 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 883000186 dimer interface [polypeptide binding]; other site 883000187 phosphorylation site [posttranslational modification] 883000188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883000189 ATP binding site [chemical binding]; other site 883000190 Mg2+ binding site [ion binding]; other site 883000191 G-X-G motif; other site 883000192 Response regulator receiver domain; Region: Response_reg; pfam00072 883000193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883000194 active site 883000195 phosphorylation site [posttranslational modification] 883000196 intermolecular recognition site; other site 883000197 dimerization interface [polypeptide binding]; other site 883000198 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 883000199 Polysulphide reductase, NrfD; Region: NrfD; cl01295 883000200 tetrathionate reductase subunit B; Provisional; Region: PRK14993 883000201 4Fe-4S binding domain; Region: Fer4; cl02805 883000202 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883000203 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883000204 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883000205 Protein of unknown function DUF45; Region: DUF45; cl00636 883000206 ATP-sulfurylase; Region: ATPS; cd00517 883000207 active site 883000208 HXXH motif; other site 883000209 flexible loop; other site 883000210 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 883000211 S17 interaction site [polypeptide binding]; other site 883000212 S8 interaction site; other site 883000213 16S rRNA interaction site [nucleotide binding]; other site 883000214 streptomycin interaction site [chemical binding]; other site 883000215 23S rRNA interaction site [nucleotide binding]; other site 883000216 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 883000217 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 883000218 elongation factor G; Reviewed; Region: PRK00007 883000219 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 883000220 G1 box; other site 883000221 putative GEF interaction site [polypeptide binding]; other site 883000222 GTP/Mg2+ binding site [chemical binding]; other site 883000223 Switch I region; other site 883000224 G2 box; other site 883000225 G3 box; other site 883000226 Switch II region; other site 883000227 G4 box; other site 883000228 G5 box; other site 883000229 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 883000230 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 883000231 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 883000232 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 883000233 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 883000234 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 883000235 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 883000236 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 883000237 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 883000238 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 883000239 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 883000240 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 883000241 putative translocon binding site; other site 883000242 protein-rRNA interface [nucleotide binding]; other site 883000243 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 883000244 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 883000245 G-X-X-G motif; other site 883000246 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 883000247 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 883000248 23S rRNA interface [nucleotide binding]; other site 883000249 5S rRNA interface [nucleotide binding]; other site 883000250 putative antibiotic binding site [chemical binding]; other site 883000251 L25 interface [polypeptide binding]; other site 883000252 L27 interface [polypeptide binding]; other site 883000253 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 883000254 23S rRNA interface [nucleotide binding]; other site 883000255 putative translocon interaction site; other site 883000256 signal recognition particle (SRP54) interaction site; other site 883000257 L23 interface [polypeptide binding]; other site 883000258 trigger factor interaction site; other site 883000259 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 883000260 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 883000261 KOW motif; Region: KOW; cl00354 883000262 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 883000263 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 883000264 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 883000265 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 883000266 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 883000267 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 883000268 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 883000269 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 883000270 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 883000271 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 883000272 5S rRNA interface [nucleotide binding]; other site 883000273 23S rRNA interface [nucleotide binding]; other site 883000274 L5 interface [polypeptide binding]; other site 883000275 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 883000276 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 883000277 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 883000278 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 883000279 23S rRNA binding site [nucleotide binding]; other site 883000280 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 883000281 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 883000282 SecY translocase; Region: SecY; pfam00344 883000283 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 883000284 active site 883000285 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 883000286 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 883000287 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 883000288 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 883000289 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 883000290 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 883000291 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 883000292 RNA binding surface [nucleotide binding]; other site 883000293 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 883000294 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 883000295 alphaNTD homodimer interface [polypeptide binding]; other site 883000296 alphaNTD - beta interaction site [polypeptide binding]; other site 883000297 alphaNTD - beta' interaction site [polypeptide binding]; other site 883000298 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 883000299 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 883000300 selenophosphate synthetase; Provisional; Region: PRK00943 883000301 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 883000302 dimerization interface [polypeptide binding]; other site 883000303 putative ATP binding site [chemical binding]; other site 883000304 Helix-turn-helix domains; Region: HTH; cl00088 883000305 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 883000306 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 883000307 putative dimerization interface [polypeptide binding]; other site 883000308 trigger factor; Region: tig; TIGR00115 883000309 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 883000310 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 883000311 oligomer interface [polypeptide binding]; other site 883000312 active site residues [active] 883000313 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 883000314 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 883000315 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 883000316 Walker A motif; other site 883000317 ATP binding site [chemical binding]; other site 883000318 Walker B motif; other site 883000319 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 883000320 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 883000321 Found in ATP-dependent protease La (LON); Region: LON; smart00464 883000322 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 883000323 Walker A motif; other site 883000324 ATP binding site [chemical binding]; other site 883000325 Walker B motif; other site 883000326 arginine finger; other site 883000327 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883000328 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883000329 metal binding site 2 [ion binding]; metal-binding site 883000330 putative DNA binding helix; other site 883000331 metal binding site 1 [ion binding]; metal-binding site 883000332 structural Zn2+ binding site [ion binding]; other site 883000333 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 883000334 ABC-ATPase subunit interface; other site 883000335 dimer interface [polypeptide binding]; other site 883000336 putative PBP binding regions; other site 883000337 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 883000338 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 883000339 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 883000340 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 883000341 putative metal binding residues [ion binding]; other site 883000342 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 883000343 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 883000344 prolyl-tRNA synthetase; Provisional; Region: PRK09194 883000345 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 formation of...; Region: ProRS_core_prok; cd00779 883000346 dimer interface [polypeptide binding]; other site 883000347 motif 1; other site 883000348 active site 883000349 motif 2; other site 883000350 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 883000351 putative deacylase active site [active] 883000352 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 attaches...; Region: class_II_aaRS-like_core; cl00268 883000353 active site 883000354 motif 3; other site 883000355 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 883000356 anticodon binding site; other site 883000357 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 883000358 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 883000359 generic binding surface II; other site 883000360 generic binding surface I; other site 883000361 Peptidase family M23; Region: Peptidase_M23; pfam01551 883000362 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 883000363 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 883000364 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 883000365 substrate binding pocket [chemical binding]; other site 883000366 chain length determination region; other site 883000367 substrate-Mg2+ binding site; other site 883000368 catalytic residues [active] 883000369 aspartate-rich region 1; other site 883000370 active site lid residues [active] 883000371 aspartate-rich region 2; other site 883000372 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 883000373 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 883000374 TPP-binding site; other site 883000375 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 883000376 PYR/PP interface [polypeptide binding]; other site 883000377 dimer interface [polypeptide binding]; other site 883000378 TPP binding site [chemical binding]; other site 883000379 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 883000380 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 883000381 Cache domain; Region: Cache_1; pfam02743 883000382 PAS fold; Region: PAS_4; pfam08448 883000383 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883000384 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883000385 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883000386 MarC family integral membrane protein; Region: MarC; cl00919 883000387 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 883000388 active site 883000389 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 883000390 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 883000391 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 883000392 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 883000393 generic binding surface II; other site 883000394 generic binding surface I; other site 883000395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883000396 Zn2+ binding site [ion binding]; other site 883000397 Mg2+ binding site [ion binding]; other site 883000398 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; cl12011 883000399 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 883000400 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 883000401 motif II; other site 883000402 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 883000403 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 883000404 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 883000405 NAD binding site [chemical binding]; other site 883000406 homodimer interface [polypeptide binding]; other site 883000407 active site 883000408 substrate binding site [chemical binding]; other site 883000409 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 883000410 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 883000411 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 883000412 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 883000413 NADP binding site [chemical binding]; other site 883000414 active site 883000415 putative substrate binding site [chemical binding]; other site 883000416 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 883000417 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 883000418 NAD binding site [chemical binding]; other site 883000419 substrate binding site [chemical binding]; other site 883000420 homodimer interface [polypeptide binding]; other site 883000421 active site 883000422 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 883000423 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 883000424 active site 883000425 C-terminal domain interface [polypeptide binding]; other site 883000426 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 883000427 active site 883000428 N-terminal domain interface [polypeptide binding]; other site 883000429 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 883000430 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 883000431 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 883000432 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 883000433 active site residue [active] 883000434 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 883000435 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 883000436 active site 883000437 motif I; other site 883000438 motif II; other site 883000439 YGGT family; Region: YGGT; cl00508 883000440 DivIVA domain; Region: DivI1A_domain; TIGR03544 883000441 DivIVA protein; Region: DivIVA; pfam05103 883000442 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 883000443 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 883000444 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883000445 PYR/PP interface [polypeptide binding]; other site 883000446 dimer interface [polypeptide binding]; other site 883000447 TPP binding site [chemical binding]; other site 883000448 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 883000449 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 883000450 TPP-binding site [chemical binding]; other site 883000451 dimer interface [polypeptide binding]; other site 883000452 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 883000453 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 883000454 putative valine binding site [chemical binding]; other site 883000455 dimer interface [polypeptide binding]; other site 883000456 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 883000457 ketol-acid reductoisomerase; Provisional; Region: PRK05479 883000458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000459 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 883000460 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883000461 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 883000462 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 883000463 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883000464 Predicted integral membrane protein [Function unknown]; Region: COG0392 883000465 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 883000466 Uncharacterized conserved protein [Function unknown]; Region: COG2898 883000467 M28 Zn-Peptidases; Region: M28_like_3; cd05644 883000468 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 883000469 active site 883000470 metal binding site [ion binding]; metal-binding site 883000471 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883000472 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883000473 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883000474 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 883000475 molybdopterin cofactor binding site; other site 883000476 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 883000477 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 883000478 molybdopterin cofactor binding site; other site 883000479 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 883000480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883000481 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 883000482 DNA binding residues [nucleotide binding] 883000483 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 883000484 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 883000485 nucleoside/Zn binding site; other site 883000486 dimer interface [polypeptide binding]; other site 883000487 catalytic motif [active] 883000488 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 883000489 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 883000490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883000491 Beta-Casp domain; Region: Beta-Casp; cl12567 883000492 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 883000493 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 883000494 S-adenosylmethionine binding site [chemical binding]; other site 883000495 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 883000496 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 883000497 active site 883000498 (T/H)XGH motif; other site 883000499 IPP transferase; Region: IPPT; cl00403 883000500 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 883000501 YeeE/YedE family (DUF395); Region: DUF395; cl01018 883000502 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 883000503 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 catalyze...; Region: LT_GEWL; cd00254 883000504 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883000505 catalytic residue [active] 883000506 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 883000507 conserved hypothetical protein; Region: TIGR02285 883000508 conserved hypothetical protein; Region: TIGR02285 883000509 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 883000510 Active Sites [active] 883000511 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 883000512 Ferritin-like domain; Region: Ferritin; pfam00210 883000513 ferroxidase diiron center [ion binding]; other site 883000514 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 883000515 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 883000516 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 883000517 dimer interface [polypeptide binding]; other site 883000518 PYR/PP interface [polypeptide binding]; other site 883000519 TPP binding site [chemical binding]; other site 883000520 substrate binding site [chemical binding]; other site 883000521 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 883000522 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 883000523 TPP-binding site [chemical binding]; other site 883000524 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 883000525 DsrE/DsrF-like family; Region: DrsE; cl00672 883000526 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 883000527 putative active site [active] 883000528 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 883000529 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 883000530 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 883000531 putative active site [active] 883000532 putative substrate binding site [chemical binding]; other site 883000533 putative cosubstrate binding site; other site 883000534 catalytic site [active] 883000535 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 883000536 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 883000537 ATP binding site [chemical binding]; other site 883000538 putative Mg++ binding site [ion binding]; other site 883000539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000540 Helicase associated domain (HA2); Region: HA2; cl04503 883000541 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 883000542 Predicted membrane protein [Function unknown]; Region: COG2364 883000543 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 883000544 RNA/DNA binding site [nucleotide binding]; other site 883000545 RRM dimerization site [polypeptide binding]; other site 883000546 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 883000547 rRNA binding site [nucleotide binding]; other site 883000548 predicted 30S ribosome binding site; other site 883000549 4Fe-4S binding domain; Region: Fer4; cl02805 883000550 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883000551 4Fe-4S binding domain; Region: Fer4; cl02805 883000552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000553 Walker A motif; other site 883000554 ATP binding site [chemical binding]; other site 883000555 Walker B motif; other site 883000556 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 883000557 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 883000558 FeS/SAM binding site; other site 883000559 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 883000560 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 883000561 dimerization interface [polypeptide binding]; other site 883000562 putative ATP binding site [chemical binding]; other site 883000563 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 883000564 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883000565 FeS/SAM binding site; other site 883000566 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 883000567 ThiC family; Region: ThiC; cl08031 883000568 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 883000569 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 883000570 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 883000571 glycerate dehydrogenase; Provisional; Region: PRK06487 883000572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000573 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 883000574 putative ligand binding site [chemical binding]; other site 883000575 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 883000576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883000577 PAS domain S-box; Region: sensory_box; TIGR00229 883000578 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 883000579 PAS domain S-box; Region: sensory_box; TIGR00229 883000580 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883000581 putative active site [active] 883000582 heme pocket [chemical binding]; other site 883000583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883000584 metal binding site [ion binding]; metal-binding site 883000585 active site 883000586 I-site; other site 883000587 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 883000588 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 883000589 AsmA family; Region: AsmA; pfam05170 883000590 sensor protein ZraS; Provisional; Region: PRK10364 883000591 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883000592 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 883000593 phosphorylation site [posttranslational modification] 883000594 dimer interface [polypeptide binding]; other site 883000595 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883000596 ATP binding site [chemical binding]; other site 883000597 G-X-G motif; other site 883000598 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 883000599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883000600 active site 883000601 phosphorylation site [posttranslational modification] 883000602 intermolecular recognition site; other site 883000603 dimerization interface [polypeptide binding]; other site 883000604 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 883000605 Walker A motif; other site 883000606 ATP binding site [chemical binding]; other site 883000607 Walker B motif; other site 883000608 arginine finger; other site 883000609 Helix-turn-helix domains; Region: HTH; cl00088 883000610 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883000611 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 883000612 peroxiredoxin; Region: AhpC; TIGR03137 883000613 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 883000614 dimer interface [polypeptide binding]; other site 883000615 decamer (pentamer of dimers) interface [polypeptide binding]; other site 883000616 catalytic triad [active] 883000617 peroxidatic and resolving cysteines [active] 883000618 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 883000619 metal ion-dependent adhesion site (MIDAS); other site 883000620 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883000621 ligand binding site [chemical binding]; other site 883000622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000623 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 883000624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000625 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 883000626 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 883000627 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 883000628 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883000629 catalytic residue [active] 883000630 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 883000631 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 883000632 tetramer interface [polypeptide binding]; other site 883000633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883000634 catalytic residue [active] 883000635 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 883000636 lipoyl attachment site [posttranslational modification]; other site 883000637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883000638 Response regulator receiver domain; Region: Response_reg; pfam00072 883000639 active site 883000640 phosphorylation site [posttranslational modification] 883000641 intermolecular recognition site; other site 883000642 dimerization interface [polypeptide binding]; other site 883000643 phosphoglucomutase; Validated; Region: PRK07564 883000644 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 883000645 active site 883000646 substrate binding site [chemical binding]; other site 883000647 metal binding site [ion binding]; metal-binding site 883000648 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; cl12011 883000649 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 883000650 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 883000651 GTP-binding protein YchF; Reviewed; Region: PRK09601 883000652 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 883000653 G1 box; other site 883000654 GTP/Mg2+ binding site [chemical binding]; other site 883000655 Switch I region; other site 883000656 G2 box; other site 883000657 Switch II region; other site 883000658 G3 box; other site 883000659 G4 box; other site 883000660 G5 box; other site 883000661 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 883000662 LysE type translocator; Region: LysE; cl00565 883000663 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 883000664 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 883000665 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 883000666 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 883000667 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 883000668 anti sigma factor interaction site; other site 883000669 regulatory phosphorylation site [posttranslational modification]; other site 883000670 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 883000671 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 883000672 FeS/SAM binding site; other site 883000673 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 883000674 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 883000675 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 883000676 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883000677 putative substrate translocation pore; other site 883000678 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 883000679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000680 DRTGG domain; Region: DRTGG; cl12147 883000681 ribonuclease III; Reviewed; Region: rnc; PRK00102 883000682 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 883000683 dimerization interface [polypeptide binding]; other site 883000684 active site 883000685 metal binding site [ion binding]; metal-binding site 883000686 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 883000687 dsRNA binding site [nucleotide binding]; other site 883000688 flagellin; Provisional; Region: PRK12802 883000689 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883000690 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883000691 FlaG protein; Region: FlaG; cl00591 883000692 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 883000693 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883000694 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 883000695 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883000696 Flagellar hook capping protein; Region: FlgD; cl04347 883000697 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 883000698 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 883000699 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883000700 putative active site [active] 883000701 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 883000702 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 883000703 Protein of unknown function (DUF342); Region: DUF342; pfam03961 883000704 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 883000705 anti sigma factor interaction site; other site 883000706 regulatory phosphorylation site [posttranslational modification]; other site 883000707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 883000708 Histidine kinase-like ATPases; This family includes several ATP-binding 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 883000709 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 883000710 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 883000711 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 883000712 putative active site [active] 883000713 dimerization interface [polypeptide binding]; other site 883000714 putative tRNAtyr binding site [nucleotide binding]; other site 883000715 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 883000716 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883000717 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 883000718 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 883000719 substrate binding site; other site 883000720 dimer interface; other site 883000721 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 883000722 homotrimer interaction site [polypeptide binding]; other site 883000723 zinc binding site [ion binding]; other site 883000724 CDP-binding sites; other site 883000725 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 883000726 Putative zinc ribbon domain; Region: DUF164; pfam02591 883000727 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 883000728 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 883000729 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 883000730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000731 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 883000732 NIL domain; Region: NIL; cl09633 883000733 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883000734 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883000735 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 883000736 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883000737 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 883000738 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 883000739 lipoprotein signal peptidase; Provisional; Region: PRK14787 883000740 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 883000741 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883000742 active site 883000743 HIGH motif; other site 883000744 nucleotide binding site [chemical binding]; other site 883000745 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 883000746 active site 883000747 KMSKS motif; other site 883000748 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 883000749 tRNA binding surface [nucleotide binding]; other site 883000750 anticodon binding site; other site 883000751 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 883000752 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 883000753 active site 883000754 catalytic triad [active] 883000755 oxyanion hole [active] 883000756 HupF/HypC family; Region: HupF_HypC; cl00394 883000757 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 883000758 putative substrate-binding site; other site 883000759 nickel binding site [ion binding]; other site 883000760 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 883000761 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 883000762 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 883000763 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 883000764 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 883000765 putative substrate-binding site; other site 883000766 nickel binding site [ion binding]; other site 883000767 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 883000768 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 883000769 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 883000770 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 883000771 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 883000772 active site 883000773 catalytic residues [active] 883000774 metal binding site [ion binding]; metal-binding site 883000775 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 883000776 aspartate kinase; Reviewed; Region: PRK06635 883000777 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 883000778 putative catalytic residues [active] 883000779 putative nucleotide binding site [chemical binding]; other site 883000780 putative aspartate binding site [chemical binding]; other site 883000781 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 883000782 putative allosteric regulatory site; other site 883000783 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 883000784 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 883000785 FOG: CBS domain [General function prediction only]; Region: COG0517 883000786 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 883000787 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 883000788 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 883000789 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 883000790 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 the...; Region: PNPsynthase; cd00003 883000791 active site 883000792 hydrophilic channel; other site 883000793 dimerization interface [polypeptide binding]; other site 883000794 catalytic residues [active] 883000795 active site lid [active] 883000796 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 883000797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000798 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 883000799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000800 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 883000801 putative CheA interaction surface; other site 883000802 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 883000803 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 883000804 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 883000805 ATP binding site [chemical binding]; other site 883000806 putative Mg++ binding site [ion binding]; other site 883000807 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 883000808 nucleotide binding region [chemical binding]; other site 883000809 ATP-binding site [chemical binding]; other site 883000810 TRCF domain; Region: TRCF; cl04088 883000811 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 883000812 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 883000813 SurA N-terminal domain; Region: SurA_N; pfam09312 883000814 PPIC-type PPIASE domain; Region: Rotamase; cl08278 883000815 Helix-turn-helix domains; Region: HTH; cl00088 883000816 Recombination protein O N terminal; Region: RecO_N; pfam11967 883000817 Recombination protein O C terminal; Region: RecO_C; pfam02565 883000818 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 883000819 dimer interface [polypeptide binding]; other site 883000820 motif 1; other site 883000821 active site 883000822 motif 2; other site 883000823 motif 3; other site 883000824 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 883000825 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 883000826 adenylate kinase; Provisional; Region: PRK14529 883000827 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 883000828 AMP-binding site [chemical binding]; other site 883000829 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 883000830 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 883000831 Ligand Binding Site [chemical binding]; other site 883000832 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 883000833 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 883000834 tRNA; other site 883000835 putative tRNA binding site [nucleotide binding]; other site 883000836 putative NADP binding site [chemical binding]; other site 883000837 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 883000838 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 883000839 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 883000840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883000841 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 883000842 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 883000843 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 883000844 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883000845 substrate binding pocket [chemical binding]; other site 883000846 membrane-bound complex binding site; other site 883000847 hinge residues; other site 883000848 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 883000849 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883000850 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 883000851 dimerization interface [polypeptide binding]; other site 883000852 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883000853 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883000854 Cache domain; Region: Cache_2; cl07034 883000855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 883000856 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 883000857 feedback inhibition sensing region; other site 883000858 homohexameric interface [polypeptide binding]; other site 883000859 nucleotide binding site [chemical binding]; other site 883000860 N-acetyl-L-glutamate binding site [chemical binding]; other site 883000861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000862 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 883000863 Walker A motif; other site 883000864 ATP binding site [chemical binding]; other site 883000865 carboxy-terminal protease; Provisional; Region: PRK11186 883000866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883000867 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 883000868 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 883000869 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 883000870 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 883000871 protein binding site [polypeptide binding]; other site 883000872 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 883000873 protein binding site [polypeptide binding]; other site 883000874 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 883000875 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 883000876 RNA binding site [nucleotide binding]; other site 883000877 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 883000878 RNA binding site [nucleotide binding]; other site 883000879 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 883000880 RNA binding site [nucleotide binding]; other site 883000881 domain interface; other site 883000882 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 883000883 RNA binding site [nucleotide binding]; other site 883000884 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 883000885 RNA binding site [nucleotide binding]; other site 883000886 PPIC-type PPIASE domain; Region: Rotamase; cl08278 883000887 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883000888 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 883000889 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 883000890 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883000891 Protein of unknown function, DUF485; Region: DUF485; cl01231 883000892 Sodium:solute symporter family; Region: SSF; cl00456 883000893 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 883000894 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 883000895 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 883000896 metal binding triad; other site 883000897 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 883000898 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 883000899 ligand binding site [chemical binding]; other site 883000900 flexible hinge region; other site 883000901 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 883000902 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 883000903 metal binding triad; other site 883000904 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 883000905 active site 883000906 substrate binding site [chemical binding]; other site 883000907 catalytic site [active] 883000908 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883000909 thiosulfate reductase PhsA; Provisional; Region: PRK15488 883000910 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 883000911 putative [Fe4-S4] binding site [ion binding]; other site 883000912 putative molybdopterin cofactor binding site [chemical binding]; other site 883000913 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 883000914 putative molybdopterin cofactor binding site; other site 883000915 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 883000916 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883000917 dimer interface [polypeptide binding]; other site 883000918 active site 883000919 metal binding site [ion binding]; metal-binding site 883000920 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 883000921 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 883000922 Cysteine-rich domain; Region: CCG; pfam02754 883000923 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 883000924 4Fe-4S binding domain; Region: Fer4; cl02805 883000925 4Fe-4S binding domain; Region: Fer4; cl02805 883000926 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 883000927 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 883000928 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 883000929 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883000930 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 883000931 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 883000932 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 883000933 FAD binding pocket [chemical binding]; other site 883000934 FAD binding motif [chemical binding]; other site 883000935 phosphate binding motif [ion binding]; other site 883000936 beta-alpha-beta structure motif; other site 883000937 NAD binding pocket [chemical binding]; other site 883000938 Iron coordination center [ion binding]; other site 883000939 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 883000940 diiron binding motif [ion binding]; other site 883000941 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 883000942 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883000943 putative active site [active] 883000944 metal binding site [ion binding]; metal-binding site 883000945 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883000946 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883000947 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 883000948 dimer interface [polypeptide binding]; other site 883000949 phosphorylation site [posttranslational modification] 883000950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883000951 ATP binding site [chemical binding]; other site 883000952 Mg2+ binding site [ion binding]; other site 883000953 G-X-G motif; other site 883000954 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883000955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883000956 active site 883000957 phosphorylation site [posttranslational modification] 883000958 intermolecular recognition site; other site 883000959 dimerization interface [polypeptide binding]; other site 883000960 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 883000961 Walker A motif; other site 883000962 ATP binding site [chemical binding]; other site 883000963 Walker B motif; other site 883000964 arginine finger; other site 883000965 Helix-turn-helix domains; Region: HTH; cl00088 883000966 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 883000967 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883000968 active site 883000969 HIGH motif; other site 883000970 nucleotide binding site [chemical binding]; other site 883000971 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK04156 883000972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883000973 active site 883000974 KMSKS motif; other site 883000975 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883000976 Helix-turn-helix domains; Region: HTH; cl00088 883000977 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 883000978 putative acyl-acceptor binding pocket; other site 883000979 recombination factor protein RarA; Reviewed; Region: PRK13342 883000980 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 883000981 Walker A motif; other site 883000982 ATP binding site [chemical binding]; other site 883000983 Walker B motif; other site 883000984 arginine finger; other site 883000985 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 883000986 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 883000987 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 883000988 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 883000989 GAF domain; Region: GAF; cl00853 883000990 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883000991 GAF domain; Region: GAF; cl00853 883000992 rod shape-determining protein MreB; Provisional; Region: PRK13930 883000993 Cell division protein FtsA; Region: FtsA; cl11496 883000994 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 883000995 active site 883000996 dimerization interface [polypeptide binding]; other site 883000997 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 883000998 nudix motif; other site 883000999 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 883001000 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 883001001 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 883001002 substrate binding site [chemical binding]; other site 883001003 dimer interface [polypeptide binding]; other site 883001004 catalytic triad [active] 883001005 Preprotein translocase SecG subunit; Region: SecG; cl09123 883001006 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 883001007 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883001008 substrate binding pocket [chemical binding]; other site 883001009 membrane-bound complex binding site; other site 883001010 hinge residues; other site 883001011 Helix-turn-helix domains; Region: HTH; cl00088 883001012 Predicted transcriptional regulator [Transcription]; Region: COG2932 883001013 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 883001014 Catalytic site [active] 883001015 diaminopimelate decarboxylase; Region: lysA; TIGR01048 883001016 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 883001017 active site 883001018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883001019 substrate binding site [chemical binding]; other site 883001020 catalytic residues [active] 883001021 dimer interface [polypeptide binding]; other site 883001022 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 883001023 MutS domain I; Region: MutS_I; pfam01624 883001024 MutS domain II; Region: MutS_II; pfam05188 883001025 MutS family domain IV; Region: MutS_IV; pfam05190 883001026 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 883001027 Walker A/P-loop; other site 883001028 ATP binding site [chemical binding]; other site 883001029 Q-loop/lid; other site 883001030 ABC transporter signature motif; other site 883001031 Walker B; other site 883001032 D-loop; other site 883001033 H-loop/switch region; other site 883001034 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 883001035 binding surface 883001036 TPR motif; other site 883001037 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 883001038 binding surface 883001039 TPR motif; other site 883001040 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 883001041 nucleotide binding site/active site [active] 883001042 HIT family signature motif; other site 883001043 catalytic residue [active] 883001044 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 883001045 DHH family; Region: DHH; pfam01368 883001046 Inorganic pyrophosphatase/exopolyphosphatase [Energy production and conversion]; Region: PPX1; COG1227 883001047 DHHA1 domain; Region: DHHA1; pfam02272 883001048 FOG: CBS domain [General function prediction only]; Region: COG0517 883001049 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 883001050 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 883001051 metal binding triad [ion binding]; metal-binding site 883001052 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 883001053 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 883001054 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 883001055 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 883001056 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 883001057 DNA binding site [nucleotide binding] 883001058 Int/Topo IB signature motif; other site 883001059 active site 883001060 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001061 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001062 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 883001063 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 883001064 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 883001065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883001066 homodimer interface [polypeptide binding]; other site 883001067 catalytic residue [active] 883001068 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 883001069 catalytic center binding site [active] 883001070 ATP binding site [chemical binding]; other site 883001071 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 883001072 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 883001073 active site 883001074 intersubunit interactions; other site 883001075 catalytic residue [active] 883001076 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 883001077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 883001078 putative acyl-acceptor binding pocket; other site 883001079 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 883001080 putative acyl-acceptor binding pocket; other site 883001081 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 883001082 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 883001083 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 883001084 Walker A/P-loop; other site 883001085 ATP binding site [chemical binding]; other site 883001086 Q-loop/lid; other site 883001087 ABC transporter signature motif; other site 883001088 Walker B; other site 883001089 D-loop; other site 883001090 H-loop/switch region; other site 883001091 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 883001092 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 883001093 CPxP motif; other site 883001094 DsrE/DsrF-like family; Region: DrsE; cl00672 883001095 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 883001096 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 883001097 RNA binding surface [nucleotide binding]; other site 883001098 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 883001099 active site 883001100 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 883001101 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 883001102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883001103 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 883001104 elongation factor P; Validated; Region: PRK00529 883001105 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 883001106 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 883001107 RNA binding site [nucleotide binding]; other site 883001108 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 883001109 RNA binding site [nucleotide binding]; other site 883001110 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 883001111 trimer interface [polypeptide binding]; other site 883001112 active site 883001113 dimer interface [polypeptide binding]; other site 883001114 Predicted GTPase [General function prediction only]; Region: COG0218 883001115 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 883001116 G1 box; other site 883001117 GTP/Mg2+ binding site [chemical binding]; other site 883001118 Switch I region; other site 883001119 G2 box; other site 883001120 G3 box; other site 883001121 Switch II region; other site 883001122 G4 box; other site 883001123 G5 box; other site 883001124 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 883001125 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 883001126 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 883001127 Bacitracin resistance protein BacA; Region: BacA; cl00858 883001128 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 883001129 glycolate transporter; Provisional; Region: PRK09695 883001130 L-lactate permease; Region: Lactate_perm; cl00701 883001131 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 883001132 PhoU domain; Region: PhoU; pfam01895 883001133 PhoU domain; Region: PhoU; pfam01895 883001134 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 883001135 domain; Region: GreA_GreB_N; pfam03449 883001136 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 883001137 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 883001138 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883001139 substrate binding pocket [chemical binding]; other site 883001140 membrane-bound complex binding site; other site 883001141 hinge residues; other site 883001142 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883001143 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 883001144 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 883001145 active site clefts [active] 883001146 zinc binding site [ion binding]; other site 883001147 dimer interface [polypeptide binding]; other site 883001148 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 883001149 dimerization interface [polypeptide binding]; other site 883001150 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 883001151 dimer interface [polypeptide binding]; other site 883001152 phosphorylation site [posttranslational modification] 883001153 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883001154 ATP binding site [chemical binding]; other site 883001155 Mg2+ binding site [ion binding]; other site 883001156 G-X-G motif; other site 883001157 Response regulator receiver domain; Region: Response_reg; pfam00072 883001158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883001159 active site 883001160 phosphorylation site [posttranslational modification] 883001161 intermolecular recognition site; other site 883001162 dimerization interface [polypeptide binding]; other site 883001163 Cation efflux family; Region: Cation_efflux; cl00316 883001164 Cation efflux family; Region: Cation_efflux; cl00316 883001165 Cation efflux family; Region: Cation_efflux; cl00316 883001166 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 883001167 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 883001168 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 883001169 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 883001170 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 883001171 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883001172 Cysteine-rich domain; Region: CCG; pfam02754 883001173 Cysteine-rich domain; Region: CCG; pfam02754 883001174 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 883001175 putative NAD(P) binding site [chemical binding]; other site 883001176 homodimer interface [polypeptide binding]; other site 883001177 homotetramer interface [polypeptide binding]; other site 883001178 active site 883001179 MarC family integral membrane protein; Region: MarC; cl00919 883001180 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 883001181 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 883001182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001184 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 883001185 catalytic residues [active] 883001186 UGMP family protein; Validated; Region: PRK09604 883001187 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 883001188 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 883001189 AMP binding site [chemical binding]; other site 883001190 metal binding site [ion binding]; metal-binding site 883001191 active site 883001192 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 883001193 TPR motif; other site 883001194 binding surface 883001195 Septum formation initiator; Region: DivIC; cl11433 883001196 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 883001197 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 883001198 Walker A motif; other site 883001199 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883001200 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 883001201 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 883001202 S-adenosylmethionine binding site [chemical binding]; other site 883001203 FOG: CBS domain [General function prediction only]; Region: COG0517 883001204 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_15; cd04803 883001205 Peptidase family M23; Region: Peptidase_M23; pfam01551 883001206 Protein of unknown function, DUF488; Region: DUF488; cl01246 883001207 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883001208 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 883001209 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883001210 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; cl09155 883001211 pyruvate carboxylase; Reviewed; Region: PRK12999 883001212 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883001213 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883001214 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 883001215 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 883001216 active site 883001217 catalytic residues [active] 883001218 metal binding site [ion binding]; metal-binding site 883001219 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 883001220 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 883001221 carboxyltransferase (CT) interaction site; other site 883001222 biotinylation site [posttranslational modification]; other site 883001223 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 883001224 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 883001225 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 883001226 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 883001227 active site 883001228 NTP binding site [chemical binding]; other site 883001229 metal binding triad [ion binding]; metal-binding site 883001230 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 883001231 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 883001232 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 883001233 DHHA2 domain; Region: DHHA2; pfam02833 883001234 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cl00021 883001235 active site 883001236 phosphorylation site [posttranslational modification] 883001237 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 883001238 active pocket/dimerization site; other site 883001239 active site 883001240 phosphorylation site [posttranslational modification] 883001241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883001242 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 883001243 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 883001244 active site 883001245 phosphorylation site [posttranslational modification] 883001246 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 A site; Region: RaiA; cd00552 883001247 30S subunit binding site; other site 883001248 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 883001249 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 883001250 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 883001251 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 883001252 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 883001253 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 883001254 Walker A/P-loop; other site 883001255 ATP binding site [chemical binding]; other site 883001256 Q-loop/lid; other site 883001257 ABC transporter signature motif; other site 883001258 Walker B; other site 883001259 D-loop; other site 883001260 H-loop/switch region; other site 883001261 OstA-like protein; Region: OstA; cl00844 883001262 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 883001263 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883001264 NeuB family; Region: NeuB; cl00496 883001265 CTP synthetase; Validated; Region: pyrG; PRK05380 883001266 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 883001267 Catalytic site [active] 883001268 active site 883001269 UTP binding site [chemical binding]; other site 883001270 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 883001271 active site 883001272 putative oxyanion hole; other site 883001273 catalytic triad [active] 883001274 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883001275 conserved cys residue [active] 883001276 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 883001277 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 883001278 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883001279 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883001280 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 883001281 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 883001282 Sulfatase; Region: Sulfatase; cl10460 883001283 Domain of unknown function DUF143; Region: DUF143; cl00519 883001284 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 883001285 FMN binding site [chemical binding]; other site 883001286 dimer interface [polypeptide binding]; other site 883001287 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883001288 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883001289 putative glutamate synthase subunit beta; Provisional; Region: PRK12770 883001290 ACT domain-containing protein [General function prediction only]; Region: COG4747 883001291 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 883001292 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 883001293 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883001294 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 883001295 molybdopterin cofactor binding site; other site 883001296 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 883001297 molybdopterin cofactor binding site; other site 883001298 NAD synthetase; Provisional; Region: PRK13981 883001299 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 883001300 multimer interface [polypeptide binding]; other site 883001301 active site 883001302 catalytic triad [active] 883001303 protein interface 1 [polypeptide binding]; other site 883001304 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 883001305 homodimer interface [polypeptide binding]; other site 883001306 NAD binding pocket [chemical binding]; other site 883001307 ATP binding pocket [chemical binding]; other site 883001308 Mg binding site [ion binding]; other site 883001309 active-site loop [active] 883001310 dihydrodipicolinate reductase; Provisional; Region: PRK00048 883001311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001312 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 883001313 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 883001314 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 883001315 nucleotide binding pocket [chemical binding]; other site 883001316 K-X-D-G motif; other site 883001317 catalytic site [active] 883001318 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 883001319 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 883001320 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 883001321 Dimer interface [polypeptide binding]; other site 883001322 BRCT sequence motif; other site 883001323 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 883001324 active site 883001325 Ion channel; Region: Ion_trans_2; cl11596 883001326 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883001327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001328 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; cl15357 883001329 excinuclease ABC subunit B; Provisional; Region: PRK05298 883001330 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 883001331 ATP binding site [chemical binding]; other site 883001332 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 883001333 nucleotide binding region [chemical binding]; other site 883001334 ATP-binding site [chemical binding]; other site 883001335 Ultra-violet resistance protein B; Region: UvrB; pfam12344 883001336 UvrB/uvrC motif; Region: UVR; pfam02151 883001337 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 883001338 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 883001339 Clp amino terminal domain; Region: Clp_N; pfam02861 883001340 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 883001341 Walker A motif; other site 883001342 ATP binding site [chemical binding]; other site 883001343 Walker B motif; other site 883001344 arginine finger; other site 883001345 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 883001346 Walker A motif; other site 883001347 ATP binding site [chemical binding]; other site 883001348 Walker B motif; other site 883001349 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 883001350 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 883001351 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 883001352 putative active site [active] 883001353 putative metal binding residues [ion binding]; other site 883001354 signature motif; other site 883001355 putative triphosphate binding site [ion binding]; other site 883001356 dimer interface [polypeptide binding]; other site 883001357 CrcB-like protein; Region: CRCB; cl09114 883001358 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 883001359 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 883001360 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 883001361 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 883001362 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 883001363 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 883001364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883001365 active site 883001366 phosphorylation site [posttranslational modification] 883001367 intermolecular recognition site; other site 883001368 dimerization interface [polypeptide binding]; other site 883001369 CheB methylesterase; Region: CheB_methylest; pfam01339 883001370 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 883001371 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 883001372 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; cl12011 883001373 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 883001374 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 883001375 putative binding surface; other site 883001376 active site 883001377 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 883001378 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883001379 ATP binding site [chemical binding]; other site 883001380 Mg2+ binding site [ion binding]; other site 883001381 G-X-G motif; other site 883001382 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 883001383 Response regulator receiver domain; Region: Response_reg; pfam00072 883001384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883001385 active site 883001386 phosphorylation site [posttranslational modification] 883001387 intermolecular recognition site; other site 883001388 dimerization interface [polypeptide binding]; other site 883001389 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001390 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001391 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001392 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001393 Heme NO binding; Region: HNOB; cl15268 883001394 DNA repair protein RadA; Provisional; Region: PRK11823 883001395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883001396 Walker A motif; other site 883001397 ATP binding site [chemical binding]; other site 883001398 Walker B motif; other site 883001399 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 883001400 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 883001401 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883001402 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 883001403 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 883001404 Coenzyme A binding pocket [chemical binding]; other site 883001405 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 883001406 catalytic residues [active] 883001407 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 883001408 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 883001409 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 883001410 substrate binding pocket [chemical binding]; other site 883001411 dimer interface [polypeptide binding]; other site 883001412 inhibitor binding site; inhibition site 883001413 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 883001414 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 883001415 B12 binding site [chemical binding]; other site 883001416 cobalt ligand [ion binding]; other site 883001417 RNA polymerase sigma factor SigC; Validated; Region: PRK07598 883001418 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 883001419 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 883001420 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883001421 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 883001422 DNA binding residues [nucleotide binding] 883001423 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 883001424 binding surface 883001425 TPR motif; other site 883001426 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 883001427 binding surface 883001428 TPR motif; other site 883001429 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 883001430 binding surface 883001431 TPR motif; other site 883001432 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 883001433 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 883001434 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 883001435 active site 883001436 HIGH motif; other site 883001437 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 883001438 KMSKS motif; other site 883001439 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 883001440 tRNA binding surface [nucleotide binding]; other site 883001441 anticodon binding site; other site 883001442 Peptidase family M48; Region: Peptidase_M48; cl12018 883001443 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 883001444 binding surface 883001445 TPR motif; other site 883001446 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 883001447 ADP-ribose binding site [chemical binding]; other site 883001448 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 883001449 active site 883001450 HslU subunit interaction site [polypeptide binding]; other site 883001451 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 883001452 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 883001453 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 883001454 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883001455 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 883001456 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 883001457 5S rRNA interface [nucleotide binding]; other site 883001458 CTC domain interface [polypeptide binding]; other site 883001459 L16 interface [polypeptide binding]; other site 883001460 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 883001461 putative active site [active] 883001462 catalytic residue [active] 883001463 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 883001464 transcription termination factor Rho; Provisional; Region: rho; PRK09376 883001465 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 883001466 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 883001467 RNA binding site [nucleotide binding]; other site 883001468 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 883001469 multimer interface [polypeptide binding]; other site 883001470 Walker A motif; other site 883001471 ATP binding site [chemical binding]; other site 883001472 Walker B motif; other site 883001473 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 883001474 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 883001475 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 883001476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001477 metal binding site [ion binding]; metal-binding site 883001478 active site 883001479 I-site; other site 883001480 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 883001481 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 883001482 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 883001483 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883001484 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 883001485 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 883001486 DNA binding residues [nucleotide binding] 883001487 DNA primase; Validated; Region: dnaG; PRK05667 883001488 CHC2 zinc finger; Region: zf-CHC2; cl15369 883001489 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 883001490 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 883001491 active site 883001492 metal binding site [ion binding]; metal-binding site 883001493 interdomain interaction site; other site 883001494 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 883001495 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883001496 Walker A/P-loop; other site 883001497 ATP binding site [chemical binding]; other site 883001498 Q-loop/lid; other site 883001499 ABC transporter signature motif; other site 883001500 Walker B; other site 883001501 D-loop; other site 883001502 H-loop/switch region; other site 883001503 Smr domain; Region: Smr; cl02619 883001504 GatB domain; Region: GatB_Yqey; cl11497 883001505 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 883001506 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 883001507 IHF dimer interface [polypeptide binding]; other site 883001508 IHF - DNA interface [nucleotide binding]; other site 883001509 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; cl12011 883001510 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 883001511 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 883001512 elongation factor G; Reviewed; Region: PRK12740 883001513 G1 box; other site 883001514 putative GEF interaction site [polypeptide binding]; other site 883001515 GTP/Mg2+ binding site [chemical binding]; other site 883001516 Switch I region; other site 883001517 G2 box; other site 883001518 G3 box; other site 883001519 Switch II region; other site 883001520 G4 box; other site 883001521 G5 box; other site 883001522 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 883001523 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 883001524 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 883001525 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 883001526 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 becoming...; Region: Lipase; cl14883 883001527 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 883001528 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 883001529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001530 metal binding site [ion binding]; metal-binding site 883001531 active site 883001532 I-site; other site 883001533 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 883001534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 883001535 Helix-turn-helix domains; Region: HTH; cl00088 883001536 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 883001537 dimerization interface [polypeptide binding]; other site 883001538 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 883001539 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 883001540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883001541 DNA-binding site [nucleotide binding]; DNA binding site 883001542 UTRA domain; Region: UTRA; cl01230 883001543 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 883001544 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 883001545 motif II; other site 883001546 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 883001547 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883001548 PYR/PP interface [polypeptide binding]; other site 883001549 dimer interface [polypeptide binding]; other site 883001550 TPP binding site [chemical binding]; other site 883001551 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 883001552 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 883001553 TPP-binding site [chemical binding]; other site 883001554 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 883001555 aminotransferase; Validated; Region: PRK07678 883001556 inhibitor-cofactor binding pocket; inhibition site 883001557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883001558 catalytic residue [active] 883001559 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 883001560 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 883001561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001562 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 883001563 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 883001564 Walker A/P-loop; other site 883001565 ATP binding site [chemical binding]; other site 883001566 Q-loop/lid; other site 883001567 ABC transporter signature motif; other site 883001568 Walker B; other site 883001569 D-loop; other site 883001570 H-loop/switch region; other site 883001571 NMT1/THI5 like; Region: NMT1; pfam09084 883001572 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883001573 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 883001574 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 883001575 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 883001576 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 883001577 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 883001578 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 883001579 Walker A/P-loop; other site 883001580 ATP binding site [chemical binding]; other site 883001581 Q-loop/lid; other site 883001582 ABC transporter signature motif; other site 883001583 Walker B; other site 883001584 D-loop; other site 883001585 H-loop/switch region; other site 883001586 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 883001587 MgtE intracellular N domain; Region: MgtE_N; cl15244 883001588 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 883001589 Divalent cation transporter; Region: MgtE; cl00786 883001590 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 883001591 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 883001592 dimerization interface [polypeptide binding]; other site 883001593 active site 883001594 Quinolinate synthetase A protein; Region: NadA; cl00420 883001595 L-aspartate oxidase; Provisional; Region: PRK09077 883001596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001597 domain; Region: Succ_DH_flav_C; pfam02910 883001598 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 883001599 AIR carboxylase; Region: AIRC; cl00310 883001600 Protein of unknown function DUF111; Region: DUF111; cl03398 883001601 Protein of unknown function DUF111; Region: DUF111; cl03398 883001602 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 883001603 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 883001604 active site 883001605 catalytic tetrad [active] 883001606 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 883001607 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 883001608 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883001609 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883001610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883001611 UbiA prenyltransferase family; Region: UbiA; cl00337 883001612 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 883001613 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 883001614 Cytochrome c; Region: Cytochrom_C; cl11414 883001615 Cytochrome c; Region: Cytochrom_C; cl11414 883001616 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 883001617 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 883001618 Subunit I/III interface [polypeptide binding]; other site 883001619 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 883001620 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 883001621 D-pathway; other site 883001622 Low-spin heme binding site [chemical binding]; other site 883001623 Putative water exit pathway; other site 883001624 Binuclear center (active site) [active] 883001625 K-pathway; other site 883001626 Putative proton exit pathway; other site 883001627 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 883001628 Cu(I) binding site [ion binding]; other site 883001629 Cytochrome c; Region: Cytochrom_C; cl11414 883001630 Cytochrome c; Region: Cytochrom_C; cl11414 883001631 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 883001632 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 883001633 Protein export membrane protein; Region: SecD_SecF; cl14618 883001634 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 883001635 Protein export membrane protein; Region: SecD_SecF; cl14618 883001636 Preprotein translocase subunit; Region: YajC; cl00806 883001637 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 883001638 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 883001639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001641 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 883001642 putative subunit interface; other site 883001643 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 883001644 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 883001645 putative active site [active] 883001646 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883001647 4Fe-4S binding domain; Region: Fer4; cl02805 883001648 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 883001649 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 883001650 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 883001651 active site 883001652 FMN binding site [chemical binding]; other site 883001653 substrate binding site [chemical binding]; other site 883001654 3Fe-4S cluster binding site [ion binding]; other site 883001655 Esterase/lipase [General function prediction only]; Region: COG1647 883001656 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 883001657 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 883001658 active site 883001659 putative substrate binding pocket [chemical binding]; other site 883001660 diaminopimelate aminotransferase; Provisional; Region: PRK13983 883001661 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 883001662 metal binding site [ion binding]; metal-binding site 883001663 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 883001664 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 883001665 FOG: CBS domain [General function prediction only]; Region: COG0517 883001666 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 883001667 Transporter associated domain; Region: CorC_HlyC; cl08393 883001668 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 883001669 putative active site [active] 883001670 catalytic triad [active] 883001671 putative dimer interface [polypeptide binding]; other site 883001672 peptide chain release factor 2; Validated; Region: prfB; PRK00578 883001673 RF-1 domain; Region: RF-1; cl02875 883001674 RF-1 domain; Region: RF-1; cl02875 883001675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001676 metal binding site [ion binding]; metal-binding site 883001677 active site 883001678 I-site; other site 883001679 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 883001680 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 883001681 P-loop; other site 883001682 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 883001683 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 883001684 IHF - DNA interface [nucleotide binding]; other site 883001685 IHF dimer interface [polypeptide binding]; other site 883001686 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 883001687 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 883001688 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 883001689 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 883001690 dihydrodipicolinate synthase; Region: dapA; TIGR00674 883001691 dimer interface [polypeptide binding]; other site 883001692 active site 883001693 catalytic residue [active] 883001694 Cache domain; Region: Cache_1; pfam02743 883001695 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 883001696 PAS fold; Region: PAS_4; pfam08448 883001697 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001698 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001699 Putative cyclase; Region: Cyclase; cl00814 883001700 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 883001701 Aspartase; Region: Aspartase; cd01357 883001702 active sites [active] 883001703 tetramer interface [polypeptide binding]; other site 883001704 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 883001705 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 883001706 substrate binding site [chemical binding]; other site 883001707 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 883001708 Clp amino terminal domain; Region: Clp_N; pfam02861 883001709 Clp amino terminal domain; Region: Clp_N; pfam02861 883001710 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 883001711 Walker A motif; other site 883001712 ATP binding site [chemical binding]; other site 883001713 Walker B motif; other site 883001714 arginine finger; other site 883001715 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 883001716 Walker A motif; other site 883001717 ATP binding site [chemical binding]; other site 883001718 Walker B motif; other site 883001719 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 883001720 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883001721 DNA binding residues [nucleotide binding] 883001722 chaperone protein DnaJ; Provisional; Region: PRK14299 883001723 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 883001724 HSP70 interaction site [polypeptide binding]; other site 883001725 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 883001726 dimer interface [polypeptide binding]; other site 883001727 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 883001728 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 883001729 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 883001730 Autotransporter beta-domain; Region: Autotransporter; cl02365 883001731 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 883001732 tetramer interface [polypeptide binding]; other site 883001733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883001734 catalytic residue [active] 883001735 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 883001736 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 883001737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883001738 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 883001739 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 883001740 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883001741 Zn2+ binding site [ion binding]; other site 883001742 Mg2+ binding site [ion binding]; other site 883001743 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 883001744 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 883001745 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 883001746 GatB domain; Region: GatB_Yqey; cl11497 883001747 Protein of unknown function DUF89; Region: DUF89; cl15397 883001748 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 883001749 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 883001750 dimer interface [polypeptide binding]; other site 883001751 active site 883001752 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 883001753 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 883001754 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 883001755 domain interfaces; other site 883001756 active site 883001757 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883001758 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 883001759 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883001760 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001761 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 883001762 non-specific DNA binding site [nucleotide binding]; other site 883001763 salt bridge; other site 883001764 sequence-specific DNA binding site [nucleotide binding]; other site 883001765 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 883001766 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 883001767 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 883001768 Probable Catalytic site; other site 883001769 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 883001770 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 883001771 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883001772 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 883001773 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 883001774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883001775 putative substrate translocation pore; other site 883001776 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 883001777 Uncharacterized conserved protein [Function unknown]; Region: COG2006 883001778 4Fe-4S binding domain; Region: Fer4; cl02805 883001779 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 883001780 proposed catalytic triad [active] 883001781 conserved cys residue [active] 883001782 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 883001783 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 883001784 dimer interface [polypeptide binding]; other site 883001785 conserved gate region; other site 883001786 putative PBP binding loops; other site 883001787 ABC-ATPase subunit interface; other site 883001788 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 883001789 dimer interface [polypeptide binding]; other site 883001790 conserved gate region; other site 883001791 ABC-ATPase subunit interface; other site 883001792 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 883001793 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 883001794 Walker A/P-loop; other site 883001795 ATP binding site [chemical binding]; other site 883001796 Q-loop/lid; other site 883001797 ABC transporter signature motif; other site 883001798 Walker B; other site 883001799 D-loop; other site 883001800 H-loop/switch region; other site 883001801 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883001802 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 883001803 substrate binding pocket [chemical binding]; other site 883001804 membrane-bound complex binding site; other site 883001805 hinge residues; other site 883001806 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 883001807 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 883001808 active site 883001809 motif I; other site 883001810 motif II; other site 883001811 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 883001812 DAK2 domain; Region: Dak2; cl03685 883001813 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 883001814 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883001815 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 883001816 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 883001817 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 883001818 dimer interface [polypeptide binding]; other site 883001819 PYR/PP interface [polypeptide binding]; other site 883001820 TPP binding site [chemical binding]; other site 883001821 substrate binding site [chemical binding]; other site 883001822 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 883001823 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 883001824 TPP-binding site [chemical binding]; other site 883001825 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 883001826 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 883001827 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 883001828 Nif-specific regulatory protein; Region: nifA; TIGR01817 883001829 GAF domain; Region: GAF; cl00853 883001830 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 883001831 Walker A motif; other site 883001832 ATP binding site [chemical binding]; other site 883001833 Walker B motif; other site 883001834 arginine finger; other site 883001835 Helix-turn-helix domains; Region: HTH; cl00088 883001836 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 883001837 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 883001838 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 883001839 dimer interface [polypeptide binding]; other site 883001840 PYR/PP interface [polypeptide binding]; other site 883001841 TPP binding site [chemical binding]; other site 883001842 substrate binding site [chemical binding]; other site 883001843 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 883001844 TPP-binding site; other site 883001845 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 883001846 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 883001847 putative catalytic cysteine [active] 883001848 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 883001849 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 883001850 active site 883001851 (T/H)XGH motif; other site 883001852 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 883001853 binding surface 883001854 TPR motif; other site 883001855 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883001856 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 883001857 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 883001858 putative active site [active] 883001859 Cache domain; Region: Cache_2; cl07034 883001860 PAS domain S-box; Region: sensory_box; TIGR00229 883001861 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883001862 putative active site [active] 883001863 heme pocket [chemical binding]; other site 883001864 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883001865 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 883001866 dimer interface [polypeptide binding]; other site 883001867 phosphorylation site [posttranslational modification] 883001868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883001869 ATP binding site [chemical binding]; other site 883001870 Mg2+ binding site [ion binding]; other site 883001871 G-X-G motif; other site 883001872 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 883001873 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 883001874 FOG: CBS domain [General function prediction only]; Region: COG0517 883001875 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883001876 metal binding site [ion binding]; metal-binding site 883001877 active site 883001878 I-site; other site 883001879 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 883001880 putative binding surface; other site 883001881 active site 883001882 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 883001883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883001884 ATP binding site [chemical binding]; other site 883001885 Mg2+ binding site [ion binding]; other site 883001886 G-X-G motif; other site 883001887 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 883001888 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 883001889 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 883001890 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883001891 Rrf2 family protein; Region: rrf2_super; TIGR00738 883001892 Helix-turn-helix domains; Region: HTH; cl00088 883001893 Rrf2 family protein; Region: rrf2_super; TIGR00738 883001894 Helix-turn-helix domains; Region: HTH; cl00088 883001895 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 883001896 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 883001897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 883001898 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 883001899 Sel1 repeat; Region: Sel1; cl02723 883001900 Sel1 repeat; Region: Sel1; cl02723 883001901 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 883001902 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883001903 FtsX-like permease family; Region: FtsX; pfam02687 883001904 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883001905 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 883001906 Walker A/P-loop; other site 883001907 ATP binding site [chemical binding]; other site 883001908 Q-loop/lid; other site 883001909 ABC transporter signature motif; other site 883001910 Walker B; other site 883001911 D-loop; other site 883001912 H-loop/switch region; other site 883001913 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883001914 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 883001915 catalytic core [active] 883001916 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 883001917 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 883001918 metal-binding site 883001919 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883001920 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 883001921 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 883001922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883001923 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883001924 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 883001925 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 883001926 FeS/SAM binding site; other site 883001927 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 883001928 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 883001929 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 883001930 S-adenosylmethionine binding site [chemical binding]; other site 883001931 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 883001932 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 883001933 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883001934 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 883001935 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 883001936 catalytic loop [active] 883001937 iron binding site [ion binding]; other site 883001938 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 883001939 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 883001940 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 883001941 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 883001942 putative MPT binding site; other site 883001943 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883001944 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 883001945 [4Fe-4S] binding site [ion binding]; other site 883001946 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 883001947 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 883001948 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 883001949 molybdopterin cofactor binding site; other site 883001950 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 883001951 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 883001952 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883001953 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 883001954 [4Fe-4S] binding site [ion binding]; other site 883001955 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 883001956 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 883001957 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 883001958 molybdopterin cofactor binding site; other site 883001959 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 883001960 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 883001961 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 883001962 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883001963 heme-binding residues [chemical binding]; other site 883001964 Helix-turn-helix domains; Region: HTH; cl00088 883001965 agmatine deiminase; Region: agmatine_aguA; TIGR03380 883001966 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 883001967 N-carbamolyputrescine amidase; Region: PLN02747 883001968 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 883001969 putative active site; other site 883001970 catalytic triad [active] 883001971 putative dimer interface [polypeptide binding]; other site 883001972 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 883001973 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 883001974 active site 883001975 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 883001976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883001977 Walker A/P-loop; other site 883001978 ATP binding site [chemical binding]; other site 883001979 Q-loop/lid; other site 883001980 ABC transporter signature motif; other site 883001981 Walker B; other site 883001982 D-loop; other site 883001983 H-loop/switch region; other site 883001984 TOBE domain; Region: TOBE_2; cl01440 883001985 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 883001986 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 883001987 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 883001988 dimer interface [polypeptide binding]; other site 883001989 conserved gate region; other site 883001990 putative PBP binding loops; other site 883001991 ABC-ATPase subunit interface; other site 883001992 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 883001993 dimer interface [polypeptide binding]; other site 883001994 conserved gate region; other site 883001995 putative PBP binding loops; other site 883001996 ABC-ATPase subunit interface; other site 883001997 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 883001998 active site 883001999 nucleophile elbow; other site 883002000 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 883002001 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 883002002 dimer interface [polypeptide binding]; other site 883002003 phosphorylation site [posttranslational modification] 883002004 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883002005 ATP binding site [chemical binding]; other site 883002006 Mg2+ binding site [ion binding]; other site 883002007 G-X-G motif; other site 883002008 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883002009 FemAB family; Region: FemAB; cl11444 883002010 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 883002011 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 883002012 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883002013 catalytic residue [active] 883002014 hypothetical protein; Provisional; Region: PRK06849 883002015 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 883002016 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 883002017 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883002018 VPS10 domain; Region: VPS10; smart00602 883002019 VPS10 domain; Region: VPS10; smart00602 883002020 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 883002021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002022 active site 883002023 phosphorylation site [posttranslational modification] 883002024 intermolecular recognition site; other site 883002025 dimerization interface [polypeptide binding]; other site 883002026 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 883002027 Walker A motif; other site 883002028 ATP binding site [chemical binding]; other site 883002029 Walker B motif; other site 883002030 arginine finger; other site 883002031 Helix-turn-helix domains; Region: HTH; cl00088 883002032 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 883002033 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 883002034 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 883002035 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 883002036 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 883002037 putative ADP-binding pocket [chemical binding]; other site 883002038 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 883002039 trimer interface [polypeptide binding]; other site 883002040 active site 883002041 substrate binding site [chemical binding]; other site 883002042 CoA binding site [chemical binding]; other site 883002043 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 883002044 trimer interface [polypeptide binding]; other site 883002045 active site 883002046 substrate binding site [chemical binding]; other site 883002047 CoA binding site [chemical binding]; other site 883002048 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 883002049 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 883002050 putative homodimer interface [polypeptide binding]; other site 883002051 MatE; Region: MatE; cl10513 883002052 O-Antigen ligase; Region: Wzy_C; cl04850 883002053 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883002054 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 883002055 DXD motif; other site 883002056 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 883002057 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883002058 catalytic residue [active] 883002059 FemAB family; Region: FemAB; cl11444 883002060 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 883002061 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 883002062 putative active site [active] 883002063 putative catalytic site [active] 883002064 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 883002065 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 883002066 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 883002067 Walker A motif; other site 883002068 ATP binding site [chemical binding]; other site 883002069 Walker B motif; other site 883002070 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 883002071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883002072 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 883002073 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 883002074 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 883002075 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 883002076 SLBB domain; Region: SLBB; pfam10531 883002077 Bacterial sugar transferase; Region: Bac_transf; cl00939 883002078 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883002079 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 883002080 binding surface 883002081 TPR motif; other site 883002082 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 883002083 TPR motif; other site 883002084 binding surface 883002085 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 883002086 binding surface 883002087 TPR motif; other site 883002088 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 883002089 binding surface 883002090 TPR motif; other site 883002091 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 883002092 binding surface 883002093 TPR motif; other site 883002094 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 883002095 binding surface 883002096 TPR motif; other site 883002097 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 883002098 TPR motif; other site 883002099 binding surface 883002100 hypothetical protein; Provisional; Region: PRK14852 883002101 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 883002102 ATP binding site [chemical binding]; other site 883002103 substrate interface [chemical binding]; other site 883002104 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 883002105 FMN binding site [chemical binding]; other site 883002106 dimer interface [polypeptide binding]; other site 883002107 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 883002108 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 883002109 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 883002110 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883002111 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883002112 Walker A/P-loop; other site 883002113 ATP binding site [chemical binding]; other site 883002114 Q-loop/lid; other site 883002115 ABC transporter signature motif; other site 883002116 Walker B; other site 883002117 D-loop; other site 883002118 H-loop/switch region; other site 883002119 DevC protein; Region: devC; TIGR01185 883002120 FtsX-like permease family; Region: FtsX; pfam02687 883002121 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883002122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002123 active site 883002124 phosphorylation site [posttranslational modification] 883002125 intermolecular recognition site; other site 883002126 dimerization interface [polypeptide binding]; other site 883002127 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 883002128 Walker A motif; other site 883002129 ATP binding site [chemical binding]; other site 883002130 Walker B motif; other site 883002131 arginine finger; other site 883002132 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883002133 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002134 active site 883002135 phosphorylation site [posttranslational modification] 883002136 intermolecular recognition site; other site 883002137 dimerization interface [polypeptide binding]; other site 883002138 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 883002139 Walker A motif; other site 883002140 ATP binding site [chemical binding]; other site 883002141 Walker B motif; other site 883002142 arginine finger; other site 883002143 Helix-turn-helix domains; Region: HTH; cl00088 883002144 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 883002145 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 883002146 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 883002147 dimer interface [polypeptide binding]; other site 883002148 phosphorylation site [posttranslational modification] 883002149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883002150 ATP binding site [chemical binding]; other site 883002151 Mg2+ binding site [ion binding]; other site 883002152 G-X-G motif; other site 883002153 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 883002154 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883002155 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883002156 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 883002157 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883002158 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883002159 Response regulator receiver domain; Region: Response_reg; pfam00072 883002160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002161 active site 883002162 phosphorylation site [posttranslational modification] 883002163 intermolecular recognition site; other site 883002164 dimerization interface [polypeptide binding]; other site 883002165 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883002166 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 883002167 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883002168 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883002169 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883002170 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 883002171 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 883002172 active site 883002173 metal binding site [ion binding]; metal-binding site 883002174 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 883002175 non-specific DNA binding site [nucleotide binding]; other site 883002176 Predicted transcriptional regulator [Transcription]; Region: COG2932 883002177 salt bridge; other site 883002178 sequence-specific DNA binding site [nucleotide binding]; other site 883002179 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 883002180 Catalytic site [active] 883002181 Putative transcription regulator (DUF1323); Region: DUF1323; cl15706 883002182 Integrase core domain; Region: rve; cl01316 883002183 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 883002184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883002185 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 883002186 Mor transcription activator family; Region: Mor; cl02360 883002187 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 catalyze...; Region: LT_GEWL; cd00254 883002188 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883002189 catalytic residue [active] 883002190 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 883002191 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 883002192 Protein of unknown function (DUF935); Region: DUF935; cl15409 883002193 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 883002194 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 883002195 Mu-like prophage I protein [General function prediction only]; Region: COG4388 883002196 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 883002197 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 883002198 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 883002199 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 883002200 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 883002201 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 883002202 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 883002203 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 883002204 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 883002205 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 883002206 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 883002207 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 883002208 Phage protein GP46; Region: GP46; cl01814 883002209 Baseplate J-like protein; Region: Baseplate_J; cl01294 883002210 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 883002211 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 883002212 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 883002213 Ligand binding site; other site 883002214 Putative Catalytic site; other site 883002215 DXD motif; other site 883002216 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883002217 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 883002218 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 883002219 active site 883002220 HIGH motif; other site 883002221 KMSKS motif; other site 883002222 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 883002223 tRNA binding surface [nucleotide binding]; other site 883002224 anticodon binding site; other site 883002225 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 883002226 dimer interface [polypeptide binding]; other site 883002227 putative tRNA-binding site [nucleotide binding]; other site 883002228 PSP1 C-terminal conserved region; Region: PSP1; cl00770 883002229 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883002230 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 883002231 active site 883002232 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 883002233 6-phosphofructokinase; Provisional; Region: PRK03202 883002234 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 883002235 active site 883002236 ADP/pyrophosphate binding site [chemical binding]; other site 883002237 dimerization interface [polypeptide binding]; other site 883002238 allosteric effector site; other site 883002239 fructose-1,6-bisphosphate binding site; other site 883002240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883002241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883002242 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 883002243 putative recombination protein RecB; Provisional; Region: PRK13909 883002244 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 883002245 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 883002246 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 883002247 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 883002248 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 883002249 FMN binding site [chemical binding]; other site 883002250 substrate binding site [chemical binding]; other site 883002251 putative catalytic residue [active] 883002252 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 883002253 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 883002254 DNA binding site [nucleotide binding] 883002255 Int/Topo IB signature motif; other site 883002256 active site 883002257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 883002258 active site 883002259 phosphorylation site [posttranslational modification] 883002260 intermolecular recognition site; other site 883002261 dimerization interface [polypeptide binding]; other site 883002262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883002263 metal binding site [ion binding]; metal-binding site 883002264 active site 883002265 HDOD domain; Region: HDOD; pfam08668 883002266 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883002267 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 883002268 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 883002269 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 883002270 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 883002271 binding surface 883002272 TPR motif; other site 883002273 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 883002274 putative binding surface; other site 883002275 active site 883002276 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 883002277 putative binding surface; other site 883002278 active site 883002279 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 883002280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883002281 ATP binding site [chemical binding]; other site 883002282 Mg2+ binding site [ion binding]; other site 883002283 G-X-G motif; other site 883002284 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 883002285 Response regulator receiver domain; Region: Response_reg; pfam00072 883002286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002287 active site 883002288 phosphorylation site [posttranslational modification] 883002289 intermolecular recognition site; other site 883002290 dimerization interface [polypeptide binding]; other site 883002291 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 883002292 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 883002293 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 883002294 Magnesium ion binding site [ion binding]; other site 883002295 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 883002296 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 883002297 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; cl12011 883002298 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 883002299 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 883002300 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 883002301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002302 active site 883002303 phosphorylation site [posttranslational modification] 883002304 intermolecular recognition site; other site 883002305 dimerization interface [polypeptide binding]; other site 883002306 CheB methylesterase; Region: CheB_methylest; pfam01339 883002307 NlpC/P60 family; Region: NLPC_P60; cl11438 883002308 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 883002309 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 883002310 flagellin; Provisional; Region: PRK12802 883002311 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883002312 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883002313 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 883002314 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883002315 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 883002316 synthetase active site [active] 883002317 NTP binding site [chemical binding]; other site 883002318 metal binding site [ion binding]; metal-binding site 883002319 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 883002320 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 883002321 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 883002322 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 883002323 peptide binding site [polypeptide binding]; other site 883002324 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 883002325 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 883002326 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 883002327 ATP binding site [chemical binding]; other site 883002328 putative Mg++ binding site [ion binding]; other site 883002329 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 883002330 nucleotide binding region [chemical binding]; other site 883002331 ATP-binding site [chemical binding]; other site 883002332 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 883002333 putative CheA interaction surface; other site 883002334 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883002335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002336 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883002337 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 883002338 non-specific DNA binding site [nucleotide binding]; other site 883002339 salt bridge; other site 883002340 sequence-specific DNA binding site [nucleotide binding]; other site 883002341 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 883002342 thiamine phosphate binding site [chemical binding]; other site 883002343 active site 883002344 pyrophosphate binding site [ion binding]; other site 883002345 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 883002346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002347 ATP binding site [chemical binding]; other site 883002348 substrate interface [chemical binding]; other site 883002349 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 883002350 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 883002351 FeS/SAM binding site; other site 883002352 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 883002353 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 883002354 ThiS interaction site; other site 883002355 putative active site [active] 883002356 tetramer interface [polypeptide binding]; other site 883002357 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 883002358 thiS-thiF/thiG interaction site; other site 883002359 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 883002360 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 883002361 Walker A/P-loop; other site 883002362 ATP binding site [chemical binding]; other site 883002363 Q-loop/lid; other site 883002364 ABC transporter signature motif; other site 883002365 Walker B; other site 883002366 D-loop; other site 883002367 H-loop/switch region; other site 883002368 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 883002369 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 883002370 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 883002371 dimer interface [polypeptide binding]; other site 883002372 conserved gate region; other site 883002373 putative PBP binding loops; other site 883002374 ABC-ATPase subunit interface; other site 883002375 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 883002376 Ligand Binding Site [chemical binding]; other site 883002377 EamA-like transporter family; Region: EamA; cl01037 883002378 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 883002379 EamA-like transporter family; Region: EamA; cl01037 883002380 Cupin domain; Region: Cupin_2; cl09118 883002381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883002382 Membrane transport protein; Region: Mem_trans; cl09117 883002383 Cupin domain; Region: Cupin_2; cl09118 883002384 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883002385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883002386 glycerol kinase; Provisional; Region: glpK; PRK00047 883002387 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 883002388 N- and C-terminal domain interface [polypeptide binding]; other site 883002389 active site 883002390 MgATP binding site [chemical binding]; other site 883002391 catalytic site [active] 883002392 metal binding site [ion binding]; metal-binding site 883002393 glycerol binding site [chemical binding]; other site 883002394 homotetramer interface [polypeptide binding]; other site 883002395 homodimer interface [polypeptide binding]; other site 883002396 FBP binding site [chemical binding]; other site 883002397 protein IIAGlc interface [polypeptide binding]; other site 883002398 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 883002399 amphipathic channel; other site 883002400 Asn-Pro-Ala signature motifs; other site 883002401 glycerol-3-phosphate dehydrogenase; Region: PLN02464 883002402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002403 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 883002404 Helix-turn-helix domains; Region: HTH; cl00088 883002405 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 883002406 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 883002407 dimer interface [polypeptide binding]; other site 883002408 ssDNA binding site [nucleotide binding]; other site 883002409 tetramer (dimer of dimers) interface [polypeptide binding]; other site 883002410 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 883002411 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 883002412 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 883002413 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883002414 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 883002415 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883002416 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 883002417 PilZ domain; Region: PilZ; cl01260 883002418 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883002419 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883002420 ligand binding site [chemical binding]; other site 883002421 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883002422 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883002423 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 883002424 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 883002425 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 883002426 G1 box; other site 883002427 putative GEF interaction site [polypeptide binding]; other site 883002428 GTP/Mg2+ binding site [chemical binding]; other site 883002429 Switch I region; other site 883002430 G2 box; other site 883002431 G3 box; other site 883002432 Switch II region; other site 883002433 G4 box; other site 883002434 G5 box; other site 883002435 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 883002436 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 883002437 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 883002438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002439 active site 883002440 phosphorylation site [posttranslational modification] 883002441 intermolecular recognition site; other site 883002442 dimerization interface [polypeptide binding]; other site 883002443 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 883002444 Walker A motif; other site 883002445 ATP binding site [chemical binding]; other site 883002446 Walker B motif; other site 883002447 arginine finger; other site 883002448 Helix-turn-helix domains; Region: HTH; cl00088 883002449 sensor protein ZraS; Provisional; Region: PRK10364 883002450 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883002451 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883002452 putative active site [active] 883002453 heme pocket [chemical binding]; other site 883002454 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 883002455 dimer interface [polypeptide binding]; other site 883002456 phosphorylation site [posttranslational modification] 883002457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883002458 ATP binding site [chemical binding]; other site 883002459 G-X-G motif; other site 883002460 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 883002461 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 883002462 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 883002463 binding surface 883002464 TPR motif; other site 883002465 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 883002466 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 883002467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002468 flavoprotein, HI0933 family; Region: TIGR00275 883002469 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 883002470 Domain of unknown function DUF21; Region: DUF21; pfam01595 883002471 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 883002472 Transporter associated domain; Region: CorC_HlyC; cl08393 883002473 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883002474 CobD/Cbib protein; Region: CobD_Cbib; cl00561 883002475 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 883002476 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 883002477 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 883002478 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 883002479 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 883002480 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883002481 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 883002482 active site 883002483 dimer interface [polypeptide binding]; other site 883002484 catalytic nucleophile [active] 883002485 glycogen branching enzyme; Provisional; Region: PRK12313 883002486 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 883002487 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 883002488 active site 883002489 catalytic site [active] 883002490 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 883002491 glycogen synthase; Provisional; Region: glgA; PRK00654 883002492 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 883002493 ADP-binding pocket [chemical binding]; other site 883002494 homodimer interface [polypeptide binding]; other site 883002495 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 883002496 nudix motif; other site 883002497 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 883002498 putative active site [active] 883002499 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 883002500 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 883002501 oligosaccharyl transferase, archaeosortase system-associated; Region: archaeo_STT3; TIGR04154 883002502 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 883002503 Acyl transferase domain; Region: Acyl_transf_1; cl08282 883002504 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 883002505 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 883002506 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 883002507 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 883002508 active site 883002509 HIGH motif; other site 883002510 KMSK motif region; other site 883002511 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 883002512 tRNA binding surface [nucleotide binding]; other site 883002513 anticodon binding site; other site 883002514 Sporulation related domain; Region: SPOR; cl10051 883002515 Domain of unknown function DUF140; Region: DUF140; cl00510 883002516 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 883002517 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 883002518 Walker A/P-loop; other site 883002519 ATP binding site [chemical binding]; other site 883002520 Q-loop/lid; other site 883002521 ABC transporter signature motif; other site 883002522 Walker B; other site 883002523 D-loop; other site 883002524 H-loop/switch region; other site 883002525 mce related protein; Region: MCE; cl15431 883002526 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 883002527 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 883002528 VacJ like lipoprotein; Region: VacJ; cl01073 883002529 Cupin domain; Region: Cupin_2; cl09118 883002530 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 883002531 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883002532 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 883002533 substrate binding pocket [chemical binding]; other site 883002534 membrane-bound complex binding site; other site 883002535 hinge residues; other site 883002536 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883002537 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 883002538 dimer interface [polypeptide binding]; other site 883002539 conserved gate region; other site 883002540 putative PBP binding loops; other site 883002541 ABC-ATPase subunit interface; other site 883002542 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883002543 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 883002544 Walker A/P-loop; other site 883002545 ATP binding site [chemical binding]; other site 883002546 Q-loop/lid; other site 883002547 ABC transporter signature motif; other site 883002548 Walker B; other site 883002549 D-loop; other site 883002550 H-loop/switch region; other site 883002551 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 883002552 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 883002553 metal binding triad; other site 883002554 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 883002555 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 883002556 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 883002557 Nitrogen regulatory protein P-II; Region: P-II; cl00412 883002558 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 883002559 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 883002560 dimer interface [polypeptide binding]; other site 883002561 catalytic triad [active] 883002562 peroxidatic and resolving cysteines [active] 883002563 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 883002564 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 883002565 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 883002566 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 883002567 RNA binding site [nucleotide binding]; other site 883002568 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 883002569 TPR motif; other site 883002570 binding surface 883002571 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 883002572 MoaE homodimer interface [polypeptide binding]; other site 883002573 MoaD interaction [polypeptide binding]; other site 883002574 active site residues [active] 883002575 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 883002576 Catalytic site; other site 883002577 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 883002578 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 883002579 Ligand Binding Site [chemical binding]; other site 883002580 recombinase A; Provisional; Region: recA; PRK09354 883002581 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 883002582 hexamer interface [polypeptide binding]; other site 883002583 Walker A motif; other site 883002584 ATP binding site [chemical binding]; other site 883002585 Walker B motif; other site 883002586 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 883002587 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 formation of...; Region: AlaRS_core; cd00673 883002588 motif 1; other site 883002589 active site 883002590 motif 2; other site 883002591 motif 3; other site 883002592 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 883002593 DHHA1 domain; Region: DHHA1; pfam02272 883002594 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 883002595 phosphate binding site [ion binding]; other site 883002596 putative substrate binding pocket [chemical binding]; other site 883002597 dimer interface [polypeptide binding]; other site 883002598 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 883002599 PhoU domain; Region: PhoU; pfam01895 883002600 PhoU domain; Region: PhoU; pfam01895 883002601 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 883002602 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 883002603 Walker A/P-loop; other site 883002604 ATP binding site [chemical binding]; other site 883002605 Q-loop/lid; other site 883002606 ABC transporter signature motif; other site 883002607 Walker B; other site 883002608 D-loop; other site 883002609 H-loop/switch region; other site 883002610 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 883002611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883002612 active site 883002613 phosphorylation site [posttranslational modification] 883002614 intermolecular recognition site; other site 883002615 dimerization interface [polypeptide binding]; other site 883002616 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 883002617 DNA binding site [nucleotide binding] 883002618 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 883002619 putative active site [active] 883002620 catalytic site [active] 883002621 putative substrate binding site [chemical binding]; other site 883002622 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 883002623 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 883002624 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 883002625 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 883002626 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 883002627 G1 box; other site 883002628 GTP/Mg2+ binding site [chemical binding]; other site 883002629 Switch I region; other site 883002630 G2 box; other site 883002631 Switch II region; other site 883002632 G3 box; other site 883002633 G4 box; other site 883002634 G5 box; other site 883002635 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 883002636 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 883002637 G-X-X-G motif; other site 883002638 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 883002639 RxxxH motif; other site 883002640 membrane protein insertase; Provisional; Region: PRK01318 883002641 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 883002642 Domain of unknown function DUF37; Region: DUF37; cl00506 883002643 Ribonuclease P; Region: Ribonuclease_P; cl00457 883002644 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 883002645 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 883002646 putative binding surface; other site 883002647 active site 883002648 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 883002649 AP endonuclease family 2; Region: AP2Ec; smart00518 883002650 AP (apurinic/apyrimidinic) site pocket; other site 883002651 DNA interaction; other site 883002652 Metal-binding active site; metal-binding site 883002653 mercuric reductase; Validated; Region: PRK06370 883002654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002655 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 883002656 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883002657 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 883002658 PilZ domain; Region: PilZ; cl01260 883002659 Competence-damaged protein; Region: CinA; cl00666 883002660 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 883002661 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 883002662 Ligand Binding Site [chemical binding]; other site 883002663 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 883002664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002666 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 883002667 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 883002668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883002669 homodimer interface [polypeptide binding]; other site 883002670 catalytic residue [active] 883002671 cytidylate kinase; Provisional; Region: cmk; PRK00023 883002672 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 883002673 CMP-binding site; other site 883002674 The sites determining sugar specificity; other site 883002675 Permease family; Region: Xan_ur_permease; cl00967 883002676 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883002677 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 883002678 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 883002679 RNA binding surface [nucleotide binding]; other site 883002680 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 883002681 active site 883002682 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 883002683 CoA-binding site [chemical binding]; other site 883002684 ATP-binding [chemical binding]; other site 883002685 Rhomboid family; Region: Rhomboid; cl11446 883002686 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 883002687 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 883002688 Walker A/P-loop; other site 883002689 ATP binding site [chemical binding]; other site 883002690 Q-loop/lid; other site 883002691 ABC transporter signature motif; other site 883002692 Walker B; other site 883002693 D-loop; other site 883002694 H-loop/switch region; other site 883002695 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 883002696 YCII-related domain; Region: YCII; cl00999 883002697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 883002698 Cache domain; Region: Cache_2; cl07034 883002699 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 883002700 dimerization interface [polypeptide binding]; other site 883002701 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002702 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883002703 Putative exonuclease, RdgC; Region: RdgC; cl01122 883002704 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 883002705 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 883002706 dimer interface [polypeptide binding]; other site 883002707 conserved gate region; other site 883002708 ABC-ATPase subunit interface; other site 883002709 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 883002710 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 883002711 dimer interface [polypeptide binding]; other site 883002712 conserved gate region; other site 883002713 putative PBP binding loops; other site 883002714 ABC-ATPase subunit interface; other site 883002715 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 883002716 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 883002717 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 883002718 Walker A/P-loop; other site 883002719 ATP binding site [chemical binding]; other site 883002720 Q-loop/lid; other site 883002721 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 883002722 ABC transporter signature motif; other site 883002723 Walker B; other site 883002724 D-loop; other site 883002725 H-loop/switch region; other site 883002726 ribonuclease R; Region: RNase_R; TIGR02063 883002727 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 883002728 RNB domain; Region: RNB; pfam00773 883002729 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 play an important...; Region: S1_RNase_R; cd04471 883002730 RNA binding site [nucleotide binding]; other site 883002731 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 883002732 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 883002733 transcriptional regulator NarP; Provisional; Region: PRK10403 883002734 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 883002735 DNA binding residues [nucleotide binding] 883002736 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 883002737 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883002738 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 883002739 putative [4Fe-4S] binding site [ion binding]; other site 883002740 putative molybdopterin cofactor binding site [chemical binding]; other site 883002741 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 883002742 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 883002743 molybdopterin cofactor binding site; other site 883002744 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883002745 4Fe-4S binding domain; Region: Fer4; cl02805 883002746 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 883002747 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 883002748 binding surface 883002749 TPR motif; other site 883002750 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 883002751 binding surface 883002752 TPR motif; other site 883002753 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 883002754 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 883002755 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 883002756 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 883002757 FAD binding pocket [chemical binding]; other site 883002758 FAD binding motif [chemical binding]; other site 883002759 phosphate binding motif [ion binding]; other site 883002760 beta-alpha-beta structure motif; other site 883002761 NAD binding pocket [chemical binding]; other site 883002762 Iron coordination center [ion binding]; other site 883002763 putative oxidoreductase; Provisional; Region: PRK12831 883002764 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 883002765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002766 Late competence development protein ComFB; Region: ComFB; pfam10719 883002767 histidinol-phosphatase; Provisional; Region: PRK07328 883002768 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 883002769 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 883002770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883002771 Walker A/P-loop; other site 883002772 ATP binding site [chemical binding]; other site 883002773 Q-loop/lid; other site 883002774 ABC transporter signature motif; other site 883002775 Walker B; other site 883002776 D-loop; other site 883002777 H-loop/switch region; other site 883002778 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 883002779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883002780 Walker A/P-loop; other site 883002781 ATP binding site [chemical binding]; other site 883002782 Q-loop/lid; other site 883002783 ABC transporter signature motif; other site 883002784 Walker B; other site 883002785 D-loop; other site 883002786 H-loop/switch region; other site 883002787 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 monomeric; Region: PRAI; cd00405 883002788 active site 883002789 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 883002790 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 883002791 4Fe-4S binding domain; Region: Fer4_5; pfam12801 883002792 4Fe-4S binding domain; Region: Fer4; cl02805 883002793 Peptidase family M48; Region: Peptidase_M48; cl12018 883002794 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 883002795 CoenzymeA binding site [chemical binding]; other site 883002796 subunit interaction site [polypeptide binding]; other site 883002797 PHB binding site; other site 883002798 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883002799 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 883002800 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883002801 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883002802 cell division protein FtsZ; Validated; Region: PRK09330 883002803 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 883002804 nucleotide binding site [chemical binding]; other site 883002805 SulA interaction site; other site 883002806 cell division protein FtsA; Region: ftsA; TIGR01174 883002807 Cell division protein FtsA; Region: FtsA; cl11496 883002808 Cell division protein FtsA; Region: FtsA; cl11496 883002809 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 883002810 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 883002811 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 883002812 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 883002813 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 883002814 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 883002815 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 883002816 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 883002817 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 883002818 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 883002819 active site 883002820 homodimer interface [polypeptide binding]; other site 883002821 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 883002822 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 883002823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002824 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 883002825 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 883002826 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 883002827 Mg++ binding site [ion binding]; other site 883002828 putative catalytic motif [active] 883002829 putative substrate binding site [chemical binding]; other site 883002830 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 883002831 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 883002832 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 883002833 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 883002834 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 883002835 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 883002836 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 883002837 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 883002838 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; cl12011 883002839 MraZ protein; Region: MraZ; pfam02381 883002840 cell division protein MraZ; Reviewed; Region: PRK00326 883002841 MraZ protein; Region: MraZ; pfam02381 883002842 pyruvate kinase; Provisional; Region: PRK05826 883002843 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; cl09155 883002844 domain interfaces; other site 883002845 active site 883002846 Protein of unknown function (DUF512); Region: DUF512; pfam04459 883002847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883002848 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 883002849 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 883002850 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883002851 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 883002852 23S rRNA interface [nucleotide binding]; other site 883002853 L3 interface [polypeptide binding]; other site 883002854 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 883002855 shikimate kinase; Reviewed; Region: aroK; PRK00131 883002856 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 883002857 ADP binding site [chemical binding]; other site 883002858 magnesium binding site [ion binding]; other site 883002859 putative shikimate binding site; other site 883002860 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl11561 883002861 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 883002862 Phosphoglycerate kinase; Region: PGK; pfam00162 883002863 substrate binding site [chemical binding]; other site 883002864 hinge regions; other site 883002865 ADP binding site [chemical binding]; other site 883002866 catalytic site [active] 883002867 transketolase; Reviewed; Region: PRK12753 883002868 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 883002869 TPP-binding site [chemical binding]; other site 883002870 dimer interface [polypeptide binding]; other site 883002871 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 883002872 PYR/PP interface [polypeptide binding]; other site 883002873 dimer interface [polypeptide binding]; other site 883002874 TPP binding site [chemical binding]; other site 883002875 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 883002876 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 883002877 substrate binding site [chemical binding]; other site 883002878 hexamer interface [polypeptide binding]; other site 883002879 metal binding site [ion binding]; metal-binding site 883002880 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 883002881 DNA binding residues [nucleotide binding] 883002882 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 883002883 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 883002884 putative tRNA-binding site [nucleotide binding]; other site 883002885 B3/4 domain; Region: B3_4; cl11458 883002886 tRNA synthetase B5 domain; Region: B5; cl08394 883002887 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 883002888 dimer interface [polypeptide binding]; other site 883002889 motif 1; other site 883002890 motif 3; other site 883002891 motif 2; other site 883002892 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 883002893 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 883002894 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 883002895 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 883002896 dimer interface [polypeptide binding]; other site 883002897 motif 1; other site 883002898 active site 883002899 motif 2; other site 883002900 motif 3; other site 883002901 ribosomal protein L20; Region: rpl20; CHL00068 883002902 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 883002903 23S rRNA binding site [nucleotide binding]; other site 883002904 L21 binding site [polypeptide binding]; other site 883002905 L13 binding site [polypeptide binding]; other site 883002906 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 883002907 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 883002908 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 883002909 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 883002910 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 883002911 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 883002912 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 883002913 active site 883002914 dimer interface [polypeptide binding]; other site 883002915 motif 1; other site 883002916 motif 2; other site 883002917 motif 3; other site 883002918 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 883002919 anticodon binding site; other site 883002920 Amino acid permease; Region: AA_permease; cl00524 883002921 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 883002922 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 883002923 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 883002924 hybrid cluster protein; Provisional; Region: PRK05290 883002925 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 883002926 ACS interaction site; other site 883002927 CODH interaction site; other site 883002928 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 883002929 hybrid metal cluster; other site 883002930 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 883002931 4Fe-4S binding domain; Region: Fer4; cl02805 883002932 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 883002933 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 883002934 putative active site [active] 883002935 metal binding site [ion binding]; metal-binding site 883002936 PAS domain S-box; Region: sensory_box; TIGR00229 883002937 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883002938 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883002939 putative active site [active] 883002940 heme pocket [chemical binding]; other site 883002941 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 883002942 dimer interface [polypeptide binding]; other site 883002943 phosphorylation site [posttranslational modification] 883002944 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883002945 ATP binding site [chemical binding]; other site 883002946 G-X-G motif; other site 883002947 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 883002948 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 883002949 ligand binding site [chemical binding]; other site 883002950 flexible hinge region; other site 883002951 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 883002952 putative switch regulator; other site 883002953 non-specific DNA interactions [nucleotide binding]; other site 883002954 DNA binding site [nucleotide binding] 883002955 sequence specific DNA binding site [nucleotide binding]; other site 883002956 putative cAMP binding site [chemical binding]; other site 883002957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883002958 Zn2+ binding site [ion binding]; other site 883002959 Mg2+ binding site [ion binding]; other site 883002960 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883002961 Zn2+ binding site [ion binding]; other site 883002962 Mg2+ binding site [ion binding]; other site 883002963 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 883002964 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 883002965 HIGH motif; other site 883002966 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 883002967 active site 883002968 KMSKS motif; other site 883002969 NifU-like domain; Region: NifU; cl00484 883002970 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 883002971 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 883002972 MatE; Region: MatE; cl10513 883002973 MatE; Region: MatE; cl10513 883002974 Helix-turn-helix domains; Region: HTH; cl00088 883002975 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 883002976 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 883002977 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 883002978 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 883002979 biotin synthase; Region: bioB; TIGR00433 883002980 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 883002981 FeS/SAM binding site; other site 883002982 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 883002983 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 883002984 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 883002985 inhibitor-cofactor binding pocket; inhibition site 883002986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883002987 catalytic residue [active] 883002988 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 883002989 active site 1 [active] 883002990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883002991 active site 883002992 Phosphopantetheine attachment site; Region: PP-binding; cl09936 883002993 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 883002994 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 883002995 active site 883002996 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 883002997 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 883002998 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883002999 catalytic residue [active] 883003000 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: PLN02974 883003001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003002 diaminopimelate decarboxylase; Region: lysA; TIGR01048 883003003 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 883003004 active site 883003005 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883003006 substrate binding site [chemical binding]; other site 883003007 catalytic residues [active] 883003008 dimer interface [polypeptide binding]; other site 883003009 Helix-turn-helix domains; Region: HTH; cl00088 883003010 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 883003011 C-terminal domain interface [polypeptide binding]; other site 883003012 sugar binding site [chemical binding]; other site 883003013 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 883003014 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 883003015 metal binding site [ion binding]; metal-binding site 883003016 dimer interface [polypeptide binding]; other site 883003017 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 883003018 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 883003019 Cache domain; Region: Cache_1; pfam02743 883003020 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 883003021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883003022 metal binding site [ion binding]; metal-binding site 883003023 active site 883003024 I-site; other site 883003025 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 883003026 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 883003027 G1 box; other site 883003028 GTP/Mg2+ binding site [chemical binding]; other site 883003029 Switch I region; other site 883003030 G2 box; other site 883003031 G3 box; other site 883003032 Switch II region; other site 883003033 G4 box; other site 883003034 G5 box; other site 883003035 Nucleoside recognition; Region: Gate; cl00486 883003036 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 883003037 Nucleoside recognition; Region: Gate; cl00486 883003038 FeoA domain; Region: FeoA; cl00838 883003039 FeoA domain; Region: FeoA; cl00838 883003040 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 883003041 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 883003042 metal binding site [ion binding]; metal-binding site 883003043 dimer interface [polypeptide binding]; other site 883003044 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 883003045 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 883003046 Walker A/P-loop; other site 883003047 ATP binding site [chemical binding]; other site 883003048 Q-loop/lid; other site 883003049 ABC transporter signature motif; other site 883003050 Walker B; other site 883003051 D-loop; other site 883003052 H-loop/switch region; other site 883003053 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883003054 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883003055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003056 active site 883003057 phosphorylation site [posttranslational modification] 883003058 intermolecular recognition site; other site 883003059 dimerization interface [polypeptide binding]; other site 883003060 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 883003061 DNA binding residues [nucleotide binding] 883003062 dimerization interface [polypeptide binding]; other site 883003063 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 883003064 DNA binding residues [nucleotide binding] 883003065 dimerization interface [polypeptide binding]; other site 883003066 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 883003067 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 883003068 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 883003069 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 883003070 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 883003071 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 883003072 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 883003073 Walker A motif; other site 883003074 ATP binding site [chemical binding]; other site 883003075 Walker B motif; other site 883003076 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 883003077 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 883003078 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 883003079 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 883003080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003081 Walker A motif; other site 883003082 ATP binding site [chemical binding]; other site 883003083 Walker B motif; other site 883003084 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 883003085 Pseudopilin GspJ; Region: GspJ; pfam11612 883003086 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 catalyze...; Region: LT_GEWL; cd00254 883003087 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883003088 catalytic residue [active] 883003089 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 883003090 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 883003091 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 883003092 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 883003093 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 883003094 Walker A motif; other site 883003095 ATP binding site [chemical binding]; other site 883003096 Walker B motif; other site 883003097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003099 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 883003100 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 883003101 putative active site [active] 883003102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003103 Transglycosylase; Region: Transgly; cl07896 883003104 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 883003105 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; cl12011 883003106 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883003107 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 883003108 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 883003109 dimer interface [polypeptide binding]; other site 883003110 conserved gate region; other site 883003111 putative PBP binding loops; other site 883003112 ABC-ATPase subunit interface; other site 883003113 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 883003114 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 883003115 Walker A/P-loop; other site 883003116 ATP binding site [chemical binding]; other site 883003117 Q-loop/lid; other site 883003118 ABC transporter signature motif; other site 883003119 Walker B; other site 883003120 D-loop; other site 883003121 H-loop/switch region; other site 883003122 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 883003123 iron-sulfur cluster binding protein, putative; Region: TIGR00276 883003124 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 883003125 active site residue [active] 883003126 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 883003127 Sel1 repeat; Region: Sel1; cl02723 883003128 Sel1 repeat; Region: Sel1; cl02723 883003129 Sel1 repeat; Region: Sel1; cl02723 883003130 Sel1 repeat; Region: Sel1; cl02723 883003131 Sel1 repeat; Region: Sel1; cl02723 883003132 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 883003133 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 883003134 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 883003135 active site 883003136 dimerization interface [polypeptide binding]; other site 883003137 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 883003138 binding surface 883003139 TPR motif; other site 883003140 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 883003141 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 883003142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003144 ATP binding site [chemical binding]; other site 883003145 Mg2+ binding site [ion binding]; other site 883003146 G-X-G motif; other site 883003147 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883003148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003149 active site 883003150 phosphorylation site [posttranslational modification] 883003151 intermolecular recognition site; other site 883003152 dimerization interface [polypeptide binding]; other site 883003153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883003154 Helix-turn-helix domains; Region: HTH; cl00088 883003155 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 883003156 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 883003157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 883003158 Cache domain; Region: Cache_2; cl07034 883003159 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003160 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003161 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 883003162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003163 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883003164 ABC transporter; Region: ABC_tran_2; pfam12848 883003165 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883003166 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 883003167 Uncharacterized conserved protein [Function unknown]; Region: COG2461 883003168 Family of unknown function (DUF438); Region: DUF438; pfam04282 883003169 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 883003170 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003171 PAS fold; Region: PAS_4; pfam08448 883003172 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003173 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003174 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003175 hypothetical protein; Provisional; Region: PHA02515 883003176 Phage Tail Collar Domain; Region: Collar; pfam07484 883003177 hypothetical protein; Region: PHA00661 883003178 hypothetical protein; Region: PHA00662 883003179 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 883003180 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 883003181 isoform II; Region: PAF-AH_p_II; pfam03403 883003182 Terminase small subunit; Region: Terminase_2; cl01513 883003183 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 883003184 binding surface 883003185 TPR motif; other site 883003186 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883003187 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883003188 ligand binding site [chemical binding]; other site 883003189 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883003190 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883003191 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003192 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003193 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 883003194 dimer interface [polypeptide binding]; other site 883003195 phosphorylation site [posttranslational modification] 883003196 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003197 ATP binding site [chemical binding]; other site 883003198 G-X-G motif; other site 883003199 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883003200 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003201 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 883003202 dimer interface [polypeptide binding]; other site 883003203 phosphorylation site [posttranslational modification] 883003204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003205 ATP binding site [chemical binding]; other site 883003206 Mg2+ binding site [ion binding]; other site 883003207 G-X-G motif; other site 883003208 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 883003209 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 883003210 Helix-turn-helix domains; Region: HTH; cl00088 883003211 Predicted transcriptional regulator [Transcription]; Region: COG2932 883003212 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 883003213 Catalytic site [active] 883003214 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883003215 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 883003216 PAS domain S-box; Region: sensory_box; TIGR00229 883003217 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883003218 putative active site [active] 883003219 heme pocket [chemical binding]; other site 883003220 PAS domain S-box; Region: sensory_box; TIGR00229 883003221 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883003222 putative active site [active] 883003223 heme pocket [chemical binding]; other site 883003224 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 883003225 dimer interface [polypeptide binding]; other site 883003226 phosphorylation site [posttranslational modification] 883003227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003228 ATP binding site [chemical binding]; other site 883003229 Mg2+ binding site [ion binding]; other site 883003230 G-X-G motif; other site 883003231 Response regulator receiver domain; Region: Response_reg; pfam00072 883003232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003233 active site 883003234 phosphorylation site [posttranslational modification] 883003235 intermolecular recognition site; other site 883003236 dimerization interface [polypeptide binding]; other site 883003237 Response regulator receiver domain; Region: Response_reg; pfam00072 883003238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003239 active site 883003240 phosphorylation site [posttranslational modification] 883003241 intermolecular recognition site; other site 883003242 dimerization interface [polypeptide binding]; other site 883003243 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 883003244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003245 active site 883003246 phosphorylation site [posttranslational modification] 883003247 intermolecular recognition site; other site 883003248 dimerization interface [polypeptide binding]; other site 883003249 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003250 Zn2+ binding site [ion binding]; other site 883003251 Mg2+ binding site [ion binding]; other site 883003252 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 883003253 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 883003254 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 883003255 putative substrate translocation pore; other site 883003256 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 883003257 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 883003258 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 883003259 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 883003260 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003261 substrate binding pocket [chemical binding]; other site 883003262 membrane-bound complex binding site; other site 883003263 hinge residues; other site 883003264 Cache domain; Region: Cache_2; cl07034 883003265 Cache domain; Region: Cache_1; pfam02743 883003266 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883003267 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 883003268 dimerization interface [polypeptide binding]; other site 883003269 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 883003270 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003271 PAS fold; Region: PAS; pfam00989 883003272 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003273 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 883003274 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 883003275 binding surface 883003276 TPR motif; other site 883003277 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 bacteriocins; Region: Peptidase_C39A; cd02549 883003278 putative active site [active] 883003279 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 883003280 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 883003281 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 883003282 TSCPD domain; Region: TSCPD; cl14834 883003283 Nitrate and nitrite sensing; Region: NIT; pfam08376 883003284 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 883003285 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003286 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003287 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 883003288 CoenzymeA binding site [chemical binding]; other site 883003289 subunit interaction site [polypeptide binding]; other site 883003290 PHB binding site; other site 883003291 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 883003292 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 883003293 heat shock protein 90; Provisional; Region: PRK05218 883003294 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003295 Mg2+ binding site [ion binding]; other site 883003296 G-X-G motif; other site 883003297 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 883003298 PAS fold; Region: PAS_4; pfam08448 883003299 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003300 putative cation:proton antiport protein; Provisional; Region: PRK10669 883003301 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 883003302 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883003303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883003304 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; cl15357 883003305 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 883003306 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 883003307 active site 883003308 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 883003309 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 883003310 Ligand Binding Site [chemical binding]; other site 883003311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883003312 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 883003313 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 883003314 catalytic loop [active] 883003315 iron binding site [ion binding]; other site 883003316 4Fe-4S binding domain; Region: Fer4; cl02805 883003317 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 883003318 putative deacylase active site [active] 883003319 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883003320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003321 active site 883003322 phosphorylation site [posttranslational modification] 883003323 intermolecular recognition site; other site 883003324 dimerization interface [polypeptide binding]; other site 883003325 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 883003326 DNA binding residues [nucleotide binding] 883003327 dimerization interface [polypeptide binding]; other site 883003328 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883003329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003330 active site 883003331 phosphorylation site [posttranslational modification] 883003332 intermolecular recognition site; other site 883003333 dimerization interface [polypeptide binding]; other site 883003334 Response regulator receiver domain; Region: Response_reg; pfam00072 883003335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003336 active site 883003337 phosphorylation site [posttranslational modification] 883003338 intermolecular recognition site; other site 883003339 dimerization interface [polypeptide binding]; other site 883003340 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 883003341 dimer interface [polypeptide binding]; other site 883003342 phosphorylation site [posttranslational modification] 883003343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003344 ATP binding site [chemical binding]; other site 883003345 Mg2+ binding site [ion binding]; other site 883003346 G-X-G motif; other site 883003347 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 883003348 active site 883003349 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 883003350 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 883003351 DHH family; Region: DHH; pfam01368 883003352 HDOD domain; Region: HDOD; pfam08668 883003353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883003354 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 883003355 binding surface 883003356 TPR motif; other site 883003357 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 contains two...; Region: OMP_decarboxylase_like; cd04725 883003358 active site 883003359 dimer interface [polypeptide binding]; other site 883003360 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 883003361 catalytic site [active] 883003362 G-X2-G-X-G-K; other site 883003363 Domain of unknown function (DUF370); Region: DUF370; cl00898 883003364 hypothetical protein; Provisional; Region: PRK11820 883003365 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 883003366 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 883003367 PAS fold; Region: PAS_4; pfam08448 883003368 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003369 PAS fold; Region: PAS_4; pfam08448 883003370 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883003371 putative active site [active] 883003372 heme pocket [chemical binding]; other site 883003373 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 883003374 dimer interface [polypeptide binding]; other site 883003375 phosphorylation site [posttranslational modification] 883003376 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003377 ATP binding site [chemical binding]; other site 883003378 Mg2+ binding site [ion binding]; other site 883003379 G-X-G motif; other site 883003380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003381 Response regulator receiver domain; Region: Response_reg; pfam00072 883003382 active site 883003383 phosphorylation site [posttranslational modification] 883003384 intermolecular recognition site; other site 883003385 dimerization interface [polypeptide binding]; other site 883003386 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883003387 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 883003388 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883003389 L-lactate permease; Region: Lactate_perm; cl00701 883003390 Ion channel; Region: Ion_trans_2; cl11596 883003391 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883003392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883003393 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; cl15357 883003394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883003395 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; cl15357 883003396 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 883003397 Helix-turn-helix domains; Region: HTH; cl00088 883003398 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 883003399 dimerization interface [polypeptide binding]; other site 883003400 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 883003401 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883003402 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 883003403 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 883003404 Cache domain; Region: Cache_1; pfam02743 883003405 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 883003406 hypothetical protein; Provisional; Region: PRK13559 883003407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003408 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003409 PAS fold; Region: PAS_4; pfam08448 883003410 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883003411 putative active site [active] 883003412 heme pocket [chemical binding]; other site 883003413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003414 Zn2+ binding site [ion binding]; other site 883003415 Mg2+ binding site [ion binding]; other site 883003416 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 883003417 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 883003418 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 883003419 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 883003420 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 883003421 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 883003422 Walker A/P-loop; other site 883003423 ATP binding site [chemical binding]; other site 883003424 Q-loop/lid; other site 883003425 ABC transporter signature motif; other site 883003426 Walker B; other site 883003427 D-loop; other site 883003428 H-loop/switch region; other site 883003429 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 883003430 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883003431 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 883003432 Walker A/P-loop; other site 883003433 ATP binding site [chemical binding]; other site 883003434 Q-loop/lid; other site 883003435 ABC transporter signature motif; other site 883003436 Walker B; other site 883003437 D-loop; other site 883003438 H-loop/switch region; other site 883003439 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883003440 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 883003441 Walker A/P-loop; other site 883003442 ATP binding site [chemical binding]; other site 883003443 Q-loop/lid; other site 883003444 ABC transporter signature motif; other site 883003445 Walker B; other site 883003446 D-loop; other site 883003447 H-loop/switch region; other site 883003448 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 883003449 TM-ABC transporter signature motif; other site 883003450 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 883003451 TM-ABC transporter signature motif; other site 883003452 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883003453 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 883003454 putative ligand binding site [chemical binding]; other site 883003455 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 883003456 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 883003457 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 883003458 NADP binding site [chemical binding]; other site 883003459 dimer interface [polypeptide binding]; other site 883003460 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 883003461 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 883003462 active site residue [active] 883003463 CbiD; Region: CbiD; cl00828 883003464 CbiD; Region: CbiD; cl00828 883003465 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 883003466 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 883003467 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; cl12011 883003468 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003469 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 883003470 substrate binding pocket [chemical binding]; other site 883003471 membrane-bound complex binding site; other site 883003472 hinge residues; other site 883003473 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 883003474 multicopper oxidase; Provisional; Region: PRK10965 883003475 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 883003476 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 883003477 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003478 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883003479 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 883003480 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 883003481 Substrate binding site; other site 883003482 Mg++ binding site; other site 883003483 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 883003484 active site 883003485 substrate binding site [chemical binding]; other site 883003486 CoA binding site [chemical binding]; other site 883003487 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 883003488 Cell division protein ZapA; Region: ZapA; cl01146 883003489 phosphodiesterase; Provisional; Region: PRK12704 883003490 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 883003491 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003492 Zn2+ binding site [ion binding]; other site 883003493 Mg2+ binding site [ion binding]; other site 883003494 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 883003495 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003496 substrate binding pocket [chemical binding]; other site 883003497 membrane-bound complex binding site; other site 883003498 hinge residues; other site 883003499 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883003500 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 883003501 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 883003502 FeS/SAM binding site; other site 883003503 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 883003504 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883003505 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 883003506 EamA-like transporter family; Region: EamA; cl01037 883003507 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 883003508 dimer interface [polypeptide binding]; other site 883003509 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 883003510 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 883003511 HrcA protein C terminal domain; Region: HrcA; pfam01628 883003512 DsrC like protein; Region: DsrC; cl01101 883003513 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 883003514 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 883003515 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 883003516 Uncharacterized conserved protein [Function unknown]; Region: COG1284 883003517 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 883003518 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 883003519 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 883003520 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883003521 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 883003522 active site 883003523 substrate binding site [chemical binding]; other site 883003524 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 883003525 FMN binding site [chemical binding]; other site 883003526 putative catalytic residues [active] 883003527 Transcriptional regulators [Transcription]; Region: FadR; COG2186 883003528 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883003529 DNA-binding site [nucleotide binding]; DNA binding site 883003530 FCD domain; Region: FCD; cl11656 883003531 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 883003532 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 883003533 dimerization interface [polypeptide binding]; other site 883003534 putative DNA binding site [nucleotide binding]; other site 883003535 putative Zn2+ binding site [ion binding]; other site 883003536 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 883003537 putative CheA interaction surface; other site 883003538 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 883003539 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003540 Response regulator receiver domain; Region: Response_reg; pfam00072 883003541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003542 active site 883003543 phosphorylation site [posttranslational modification] 883003544 dimerization interface [polypeptide binding]; other site 883003545 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 883003546 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 883003547 Walker A motif; other site 883003548 ATP binding site [chemical binding]; other site 883003549 Walker B motif; other site 883003550 arginine finger; other site 883003551 Helix-turn-helix domains; Region: HTH; cl00088 883003552 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003553 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003554 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 883003555 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 883003556 Walker A motif; other site 883003557 Putative Fe-S cluster; Region: FeS; pfam04060 883003558 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 883003559 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883003560 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 883003561 [4Fe-4S] binding site [ion binding]; other site 883003562 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 883003563 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 883003564 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 883003565 molybdopterin cofactor binding site; other site 883003566 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 883003567 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 883003568 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 883003569 catalytic residues [active] 883003570 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883003571 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 883003572 putative ligand binding site [chemical binding]; other site 883003573 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 883003574 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 883003575 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883003576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883003577 putative active site [active] 883003578 heme pocket [chemical binding]; other site 883003579 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 883003580 dimer interface [polypeptide binding]; other site 883003581 phosphorylation site [posttranslational modification] 883003582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003583 ATP binding site [chemical binding]; other site 883003584 Mg2+ binding site [ion binding]; other site 883003585 G-X-G motif; other site 883003586 Response regulator receiver domain; Region: Response_reg; pfam00072 883003587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003588 active site 883003589 phosphorylation site [posttranslational modification] 883003590 intermolecular recognition site; other site 883003591 dimerization interface [polypeptide binding]; other site 883003592 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 883003593 anti sigma factor interaction site; other site 883003594 regulatory phosphorylation site [posttranslational modification]; other site 883003595 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 883003596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003597 active site 883003598 phosphorylation site [posttranslational modification] 883003599 intermolecular recognition site; other site 883003600 dimerization interface [polypeptide binding]; other site 883003601 LytTr DNA-binding domain; Region: LytTR; cl04498 883003602 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 883003603 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 883003604 GAF domain; Region: GAF; cl00853 883003605 Histidine kinase; Region: His_kinase; pfam06580 883003606 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003607 ATP binding site [chemical binding]; other site 883003608 Mg2+ binding site [ion binding]; other site 883003609 G-X-G motif; other site 883003610 Carbon starvation protein CstA; Region: CstA; cl00856 883003611 Carbon starvation protein CstA; Region: CstA; cl00856 883003612 Carbon starvation protein CstA; Region: CstA; cl00856 883003613 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 883003614 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 883003615 FeS/SAM binding site; other site 883003616 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 883003617 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 883003618 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 883003619 GTP binding site; other site 883003620 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 883003621 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 883003622 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 883003623 SelR domain; Region: SelR; cl00369 883003624 CreA protein; Region: CreA; pfam05981 883003625 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; cl12011 883003626 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883003627 Integral membrane protein TerC family; Region: TerC; cl10468 883003628 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883003629 metal binding site 2 [ion binding]; metal-binding site 883003630 putative DNA binding helix; other site 883003631 metal binding site 1 [ion binding]; metal-binding site 883003632 dimer interface [polypeptide binding]; other site 883003633 structural Zn2+ binding site [ion binding]; other site 883003634 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 883003635 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 883003636 tetramer interface [polypeptide binding]; other site 883003637 heme binding pocket [chemical binding]; other site 883003638 NADPH binding site [chemical binding]; other site 883003639 Cache domain; Region: Cache_1; pfam02743 883003640 PAS domain S-box; Region: sensory_box; TIGR00229 883003641 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883003642 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 883003643 phosphorylation site [posttranslational modification] 883003644 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003645 ATP binding site [chemical binding]; other site 883003646 G-X-G motif; other site 883003647 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883003648 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 883003649 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883003650 putative [4Fe-4S] binding site [ion binding]; other site 883003651 putative molybdopterin cofactor binding site [chemical binding]; other site 883003652 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 883003653 molybdopterin cofactor binding site; other site 883003654 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 883003655 Glutamine amidotransferase class-I; Region: GATase; pfam00117 883003656 catalytic triad [active] 883003657 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 883003658 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 883003659 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883003660 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 883003661 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 883003662 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 883003663 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 883003664 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883003665 metal binding site [ion binding]; metal-binding site 883003666 active site 883003667 I-site; other site 883003668 Cupin domain; Region: Cupin_2; cl09118 883003669 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883003670 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 883003671 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003672 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 883003673 dimer interface [polypeptide binding]; other site 883003674 phosphorylation site [posttranslational modification] 883003675 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003676 ATP binding site [chemical binding]; other site 883003677 Mg2+ binding site [ion binding]; other site 883003678 G-X-G motif; other site 883003679 Response regulator receiver domain; Region: Response_reg; pfam00072 883003680 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003681 active site 883003682 phosphorylation site [posttranslational modification] 883003683 intermolecular recognition site; other site 883003684 dimerization interface [polypeptide binding]; other site 883003685 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 883003686 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 883003687 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 883003688 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883003689 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 883003690 Ligand Binding Site [chemical binding]; other site 883003691 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883003692 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883003693 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 883003694 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003695 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 883003696 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 883003697 dimer interface [polypeptide binding]; other site 883003698 phosphorylation site [posttranslational modification] 883003699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003700 ATP binding site [chemical binding]; other site 883003701 Mg2+ binding site [ion binding]; other site 883003702 G-X-G motif; other site 883003703 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883003704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003705 active site 883003706 phosphorylation site [posttranslational modification] 883003707 intermolecular recognition site; other site 883003708 dimerization interface [polypeptide binding]; other site 883003709 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 883003710 Walker A motif; other site 883003711 ATP binding site [chemical binding]; other site 883003712 Walker B motif; other site 883003713 arginine finger; other site 883003714 Helix-turn-helix domains; Region: HTH; cl00088 883003715 Helix-turn-helix domains; Region: HTH; cl00088 883003716 Predicted transcriptional regulator [Transcription]; Region: COG2932 883003717 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 883003718 Catalytic site [active] 883003719 Histidine kinase; Region: HisKA_2; cl06527 883003720 Putative transcription regulator (DUF1323); Region: DUF1323; cl15706 883003721 Integrase core domain; Region: rve; cl01316 883003722 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 883003723 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 883003724 Helix-turn-helix domains; Region: HTH; cl00088 883003725 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 883003726 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 883003727 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883003728 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 883003729 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 883003730 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 catalyze...; Region: LT_GEWL; cd00254 883003731 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883003732 catalytic residue [active] 883003733 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 883003734 Terminase-like family; Region: Terminase_6; pfam03237 883003735 Protein of unknown function (DUF935); Region: DUF935; cl15409 883003736 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 883003737 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 883003738 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 883003739 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 883003740 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 883003741 Phage protein D [General function prediction only]; Region: COG3500; cl12180 883003742 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 883003743 Baseplate J-like protein; Region: Baseplate_J; cl01294 883003744 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 883003745 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 883003746 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; cl12011 883003747 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 883003748 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 883003749 selenocysteine synthase; Provisional; Region: PRK04311 883003750 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 883003751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883003752 catalytic residue [active] 883003753 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 883003754 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883003755 NAD binding site [chemical binding]; other site 883003756 putative substrate binding site 2 [chemical binding]; other site 883003757 putative substrate binding site 1 [chemical binding]; other site 883003758 active site 883003759 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 883003760 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 883003761 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 883003762 oligomer interface [polypeptide binding]; other site 883003763 putative active site [active] 883003764 metal binding site [ion binding]; metal-binding site 883003765 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 883003766 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 883003767 putative active site [active] 883003768 metal binding site [ion binding]; metal-binding site 883003769 EamA-like transporter family; Region: EamA; cl01037 883003770 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 883003771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883003772 Walker A/P-loop; other site 883003773 ATP binding site [chemical binding]; other site 883003774 Q-loop/lid; other site 883003775 ABC transporter signature motif; other site 883003776 Walker B; other site 883003777 D-loop; other site 883003778 H-loop/switch region; other site 883003779 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 883003780 nickel responsive regulator; Provisional; Region: PRK04460 883003781 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15375 883003782 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 883003783 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 883003784 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883003785 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 883003786 Membrane transport protein; Region: Mem_trans; cl09117 883003787 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883003788 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 883003789 Walker A motif; other site 883003790 ATP binding site [chemical binding]; other site 883003791 Walker B motif; other site 883003792 arginine finger; other site 883003793 Helix-turn-helix domains; Region: HTH; cl00088 883003794 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883003795 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 883003796 binding surface 883003797 TPR motif; other site 883003798 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 883003799 binding surface 883003800 TPR motif; other site 883003801 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 883003802 putative ligand binding pocket/active site [active] 883003803 putative metal binding site [ion binding]; other site 883003804 FemAB family; Region: FemAB; cl11444 883003805 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 883003806 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 883003807 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 883003808 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 883003809 FeS/SAM binding site; other site 883003810 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 883003811 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 883003812 hypothetical protein; Provisional; Region: PRK06361 883003813 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 883003814 TPR motif; other site 883003815 binding surface 883003816 Protein of unknown function (DUF615); Region: DUF615; cl01147 883003817 UbiA prenyltransferase family; Region: UbiA; cl00337 883003818 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883003819 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883003820 Zn2+ binding site [ion binding]; other site 883003821 Mg2+ binding site [ion binding]; other site 883003822 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 883003823 MPT binding site; other site 883003824 trimer interface [polypeptide binding]; other site 883003825 LysE type translocator; Region: LysE; cl00565 883003826 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883003827 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 883003828 Walker A/P-loop; other site 883003829 ATP binding site [chemical binding]; other site 883003830 Q-loop/lid; other site 883003831 ABC transporter signature motif; other site 883003832 Walker B; other site 883003833 D-loop; other site 883003834 H-loop/switch region; other site 883003835 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 883003836 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883003837 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 883003838 dimer interface [polypeptide binding]; other site 883003839 conserved gate region; other site 883003840 putative PBP binding loops; other site 883003841 ABC-ATPase subunit interface; other site 883003842 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883003843 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 883003844 substrate binding pocket [chemical binding]; other site 883003845 membrane-bound complex binding site; other site 883003846 hinge residues; other site 883003847 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 883003848 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 883003849 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 883003850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883003851 NAD(P) binding pocket [chemical binding]; other site 883003852 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 883003853 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 883003854 OstA-like protein; Region: OstA; cl00844 883003855 Organic solvent tolerance protein; Region: OstA_C; pfam04453 883003856 alanine racemase; Reviewed; Region: alr; PRK00053 883003857 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 883003858 active site 883003859 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883003860 dimer interface [polypeptide binding]; other site 883003861 substrate binding site [chemical binding]; other site 883003862 catalytic residues [active] 883003863 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 883003864 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 883003865 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 883003866 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 883003867 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 883003868 replicative DNA helicase; Region: DnaB; TIGR00665 883003869 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 883003870 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 883003871 Walker A motif; other site 883003872 ATP binding site [chemical binding]; other site 883003873 Walker B motif; other site 883003874 DNA binding loops [nucleotide binding] 883003875 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 883003876 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 883003877 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 883003878 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 883003879 ligand binding site [chemical binding]; other site 883003880 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 883003881 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 883003882 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 883003883 active site 883003884 HIGH motif; other site 883003885 dimer interface [polypeptide binding]; other site 883003886 KMSKS motif; other site 883003887 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 883003888 RNA binding surface [nucleotide binding]; other site 883003889 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 883003890 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 883003891 putative active site [active] 883003892 metal binding site [ion binding]; metal-binding site 883003893 homodimer binding site [polypeptide binding]; other site 883003894 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 883003895 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 883003896 dimer interface [polypeptide binding]; other site 883003897 putative functional site; other site 883003898 putative MPT binding site; other site 883003899 EamA-like transporter family; Region: EamA; cl01037 883003900 EamA-like transporter family; Region: EamA; cl01037 883003901 Response regulator receiver domain; Region: Response_reg; pfam00072 883003902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003903 active site 883003904 phosphorylation site [posttranslational modification] 883003905 intermolecular recognition site; other site 883003906 dimerization interface [polypeptide binding]; other site 883003907 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 883003908 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883003909 Walker A motif; other site 883003910 ATP binding site [chemical binding]; other site 883003911 Walker B motif; other site 883003912 arginine finger; other site 883003913 response regulator GlrR; Provisional; Region: PRK15115 883003914 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883003915 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 883003916 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 883003917 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 883003918 dimer interface [polypeptide binding]; other site 883003919 phosphorylation site [posttranslational modification] 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; cl00075 883003921 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883003922 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883003923 metal binding site 2 [ion binding]; metal-binding site 883003924 putative DNA binding helix; other site 883003925 metal binding site 1 [ion binding]; metal-binding site 883003926 dimer interface [polypeptide binding]; other site 883003927 structural Zn2+ binding site [ion binding]; other site 883003928 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 883003929 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 883003930 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 883003931 Peptidase M16C associated; Region: M16C_assoc; pfam08367 883003932 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883003933 metal binding site [ion binding]; metal-binding site 883003934 active site 883003935 I-site; other site 883003936 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 883003937 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883003938 DNA binding residues [nucleotide binding] 883003939 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 883003940 PAS fold; Region: PAS_4; pfam08448 883003941 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003942 putative active site [active] 883003943 heme pocket [chemical binding]; other site 883003944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883003945 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883003946 Response regulator receiver domain; Region: Response_reg; pfam00072 883003947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883003948 active site 883003949 phosphorylation site [posttranslational modification] 883003950 intermolecular recognition site; other site 883003951 dimerization interface [polypeptide binding]; other site 883003952 PAS domain S-box; Region: sensory_box; TIGR00229 883003953 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003954 PAS fold; Region: PAS_4; pfam08448 883003955 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883003956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883003957 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883003958 ATP binding site [chemical binding]; other site 883003959 Mg2+ binding site [ion binding]; other site 883003960 G-X-G motif; other site 883003961 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 883003962 dimer interface [polypeptide binding]; other site 883003963 substrate binding site [chemical binding]; other site 883003964 ATP binding site [chemical binding]; other site 883003965 gamma-glutamyl kinase; Provisional; Region: PRK05429 883003966 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 883003967 nucleotide binding site [chemical binding]; other site 883003968 homotetrameric interface [polypeptide binding]; other site 883003969 putative phosphate binding site [ion binding]; other site 883003970 putative allosteric binding site; other site 883003971 PUA domain; Region: PUA; cl00607 883003972 GTPase CgtA; Reviewed; Region: obgE; PRK12299 883003973 GTP1/OBG; Region: GTP1_OBG; pfam01018 883003974 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 883003975 G1 box; other site 883003976 GTP/Mg2+ binding site [chemical binding]; other site 883003977 Switch I region; other site 883003978 G2 box; other site 883003979 G3 box; other site 883003980 Switch II region; other site 883003981 G4 box; other site 883003982 G5 box; other site 883003983 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 883003984 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 883003985 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 883003986 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 883003987 substrate binding site; other site 883003988 tetramer interface; other site 883003989 TRAM domain; Region: TRAM; cl01282 883003990 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 883003991 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; cl12011 883003992 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 883003993 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 883003994 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 883003995 ATP synthase A chain; Region: ATP-synt_A; cl00413 883003996 ATP synthase subunit C; Region: ATP-synt_C; cl00466 883003997 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 883003998 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 883003999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004000 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 883004001 Uncharacterized conserved protein [Function unknown]; Region: COG1912 883004002 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 883004003 Flagellar FliJ protein; Region: FliJ; cl09161 883004004 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 883004005 MgtE intracellular N domain; Region: MgtE_N; cl15244 883004006 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 883004007 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 883004008 dimerization interface 3.5A [polypeptide binding]; other site 883004009 active site 883004010 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 883004011 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrF [Energy production and conversion]; Region: NqrF; COG2871 883004012 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 883004013 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; cl12011 883004014 transcription termination factor Rho; Provisional; Region: PRK12678 883004015 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 883004016 lipoyl synthase; Provisional; Region: PRK05481 883004017 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 883004018 FeS/SAM binding site; other site 883004019 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 883004020 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 883004021 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 883004022 FeS/SAM binding site; other site 883004023 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 883004024 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 883004025 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 883004026 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 883004027 NlpC/P60 family; Region: NLPC_P60; cl11438 883004028 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 883004029 FecR protein; Region: FecR; pfam04773 883004030 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883004031 ligand binding site [chemical binding]; other site 883004032 CHASE2 domain; Region: CHASE2; cl01732 883004033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004034 Zn2+ binding site [ion binding]; other site 883004035 Mg2+ binding site [ion binding]; other site 883004036 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 883004037 Tetramer interface [polypeptide binding]; other site 883004038 active site 883004039 FMN-binding site [chemical binding]; other site 883004040 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 883004041 Ligand Binding Site [chemical binding]; other site 883004042 shikimate kinase; Reviewed; Region: aroK; PRK00131 883004043 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 883004044 ADP binding site [chemical binding]; other site 883004045 magnesium binding site [ion binding]; other site 883004046 putative shikimate binding site; other site 883004047 aminotransferase; Validated; Region: PRK08175 883004048 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 883004049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883004050 homodimer interface [polypeptide binding]; other site 883004051 catalytic residue [active] 883004052 homoserine dehydrogenase; Provisional; Region: PRK06349 883004053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004054 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 883004055 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 883004056 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 883004057 GIY-YIG motif/motif A; other site 883004058 putative active site [active] 883004059 putative metal binding site [ion binding]; other site 883004060 Sulfatase; Region: Sulfatase; cl10460 883004061 Sulfatase; Region: Sulfatase; cl10460 883004062 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 883004063 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 883004064 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 883004065 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883004066 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883004067 Response regulator receiver domain; Region: Response_reg; pfam00072 883004068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004069 active site 883004070 phosphorylation site [posttranslational modification] 883004071 intermolecular recognition site; other site 883004072 dimerization interface [polypeptide binding]; other site 883004073 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004074 PAS fold; Region: PAS_3; pfam08447 883004075 putative active site [active] 883004076 heme pocket [chemical binding]; other site 883004077 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 883004078 Histidine kinase; Region: HisKA_2; cl06527 883004079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004080 ATP binding site [chemical binding]; other site 883004081 Mg2+ binding site [ion binding]; other site 883004082 G-X-G motif; other site 883004083 MltA specific insert domain; Region: MltA; cl08398 883004084 3D domain; Region: 3D; cl01439 883004085 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 883004086 active site 883004087 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 883004088 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 883004089 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 883004090 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 883004091 active site 883004092 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 883004093 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 883004094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004095 dihydroorotase; Validated; Region: pyrC; PRK09357 883004096 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 883004097 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 883004098 active site 883004099 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 883004100 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 883004101 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883004102 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 883004103 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 883004104 active site 883004105 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 883004106 active site 2 [active] 883004107 Helix-turn-helix domains; Region: HTH; cl00088 883004108 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 883004109 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883004110 putative substrate translocation pore; other site 883004111 MFS_1 like family; Region: MFS_1_like; pfam12832 883004112 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 883004113 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 883004114 FeS/SAM binding site; other site 883004115 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 883004116 active site 883004117 NAD binding site [chemical binding]; other site 883004118 metal binding site [ion binding]; metal-binding site 883004119 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 883004120 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 883004121 active site 883004122 DNA binding site [nucleotide binding] 883004123 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 883004124 Catalytic site [active] 883004125 Helix-turn-helix domains; Region: HTH; cl00088 883004126 Predicted membrane protein [Function unknown]; Region: COG2119 883004127 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 883004128 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 883004129 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883004130 GAF domain; Region: GAF; cl00853 883004131 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 883004132 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 883004133 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 883004134 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 883004135 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; cl09940 883004136 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 883004137 S-adenosylmethionine binding site [chemical binding]; other site 883004138 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 883004139 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 883004140 peptide chain release factor 1; Validated; Region: prfA; PRK00591 883004141 RF-1 domain; Region: RF-1; cl02875 883004142 RF-1 domain; Region: RF-1; cl02875 883004143 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; cl12011 883004144 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 883004145 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 883004146 elongation factor Tu; Reviewed; Region: PRK00049 883004147 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 883004148 G1 box; other site 883004149 GEF interaction site [polypeptide binding]; other site 883004150 GTP/Mg2+ binding site [chemical binding]; other site 883004151 Switch I region; other site 883004152 G2 box; other site 883004153 G3 box; other site 883004154 Switch II region; other site 883004155 G4 box; other site 883004156 G5 box; other site 883004157 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 883004158 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 883004159 Antibiotic Binding Site [chemical binding]; other site 883004160 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 883004161 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 883004162 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 883004163 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 883004164 putative homodimer interface [polypeptide binding]; other site 883004165 KOW motif; Region: KOW; cl00354 883004166 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 883004167 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 883004168 23S rRNA interface [nucleotide binding]; other site 883004169 L7/L12 interface [polypeptide binding]; other site 883004170 putative thiostrepton binding site; other site 883004171 L25 interface [polypeptide binding]; other site 883004172 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 883004173 mRNA/rRNA interface [nucleotide binding]; other site 883004174 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 883004175 23S rRNA interface [nucleotide binding]; other site 883004176 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 883004177 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 883004178 core dimer interface [polypeptide binding]; other site 883004179 peripheral dimer interface [polypeptide binding]; other site 883004180 L10 interface [polypeptide binding]; other site 883004181 L11 interface [polypeptide binding]; other site 883004182 putative EF-Tu interaction site [polypeptide binding]; other site 883004183 putative EF-G interaction site [polypeptide binding]; other site 883004184 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; cl04593 883004185 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 883004186 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 883004187 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 883004188 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; cl04593 883004189 RPB11 interaction site [polypeptide binding]; other site 883004190 RPB12 interaction site [polypeptide binding]; other site 883004191 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 883004192 RPB3 interaction site [polypeptide binding]; other site 883004193 RPB1 interaction site [polypeptide binding]; other site 883004194 RPB11 interaction site [polypeptide binding]; other site 883004195 RPB10 interaction site [polypeptide binding]; other site 883004196 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 883004197 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 883004198 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 883004199 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 883004200 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 883004201 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 883004202 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 883004203 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 883004204 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 883004205 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 883004206 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 883004207 DNA binding site [nucleotide binding] 883004208 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 883004209 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 883004210 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 883004211 dimerization interface [polypeptide binding]; other site 883004212 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883004213 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 883004214 dimer interface [polypeptide binding]; other site 883004215 phosphorylation site [posttranslational modification] 883004216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004217 ATP binding site [chemical binding]; other site 883004218 Mg2+ binding site [ion binding]; other site 883004219 G-X-G motif; other site 883004220 large tegument protein UL36; Provisional; Region: PHA03247 883004221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004222 TIGR01777 family protein; Region: yfcH 883004223 NAD(P) binding site [chemical binding]; other site 883004224 active site 883004225 Response regulator receiver domain; Region: Response_reg; pfam00072 883004226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004227 active site 883004228 phosphorylation site [posttranslational modification] 883004229 intermolecular recognition site; other site 883004230 dimerization interface [polypeptide binding]; other site 883004231 PAS fold; Region: PAS_4; pfam08448 883004232 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004233 putative active site [active] 883004234 heme pocket [chemical binding]; other site 883004235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004236 Zn2+ binding site [ion binding]; other site 883004237 Mg2+ binding site [ion binding]; other site 883004238 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883004239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004240 active site 883004241 phosphorylation site [posttranslational modification] 883004242 intermolecular recognition site; other site 883004243 dimerization interface [polypeptide binding]; other site 883004244 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 883004245 Walker A motif; other site 883004246 ATP binding site [chemical binding]; other site 883004247 Walker B motif; other site 883004248 Helix-turn-helix domains; Region: HTH; cl00088 883004249 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 883004250 catalytic core [active] 883004251 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 883004252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004253 Response regulator receiver domain; Region: Response_reg; pfam00072 883004254 active site 883004255 phosphorylation site [posttranslational modification] 883004256 intermolecular recognition site; other site 883004257 dimerization interface [polypeptide binding]; other site 883004258 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 883004259 binding surface 883004260 TPR motif; other site 883004261 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 883004262 binding surface 883004263 TPR motif; other site 883004264 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 883004265 binding surface 883004266 TPR motif; other site 883004267 Domain of unknown function DUF39; Region: DUF39; cl14897 883004268 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 883004269 Ligand Binding Site [chemical binding]; other site 883004270 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 883004271 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 883004272 adenylosuccinate lyase; Provisional; Region: PRK07492 883004273 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 883004274 tetramer interface [polypeptide binding]; other site 883004275 active site 883004276 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 883004277 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883004278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 883004279 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 883004280 ATP cone domain; Region: ATP-cone; pfam03477 883004281 Class III ribonucleotide reductase; Region: RNR_III; cd01675 883004282 effector binding site; other site 883004283 active site 883004284 Zn binding site [ion binding]; other site 883004285 glycine loop; other site 883004286 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883004287 Protein of unknown function, DUF486; Region: DUF486; cl01236 883004288 PAS domain S-box; Region: sensory_box; TIGR00229 883004289 PAS fold; Region: PAS_3; pfam08447 883004290 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 883004291 PAS domain S-box; Region: sensory_box; TIGR00229 883004292 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004293 putative active site [active] 883004294 heme pocket [chemical binding]; other site 883004295 PAS domain S-box; Region: sensory_box; TIGR00229 883004296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004297 putative active site [active] 883004298 heme pocket [chemical binding]; other site 883004299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004300 metal binding site [ion binding]; metal-binding site 883004301 active site 883004302 I-site; other site 883004303 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883004304 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 883004305 putative ligand binding site [chemical binding]; other site 883004306 Transcriptional regulators [Transcription]; Region: GntR; COG1802 883004307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883004308 DNA-binding site [nucleotide binding]; DNA binding site 883004309 FCD domain; Region: FCD; cl11656 883004310 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883004311 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 883004312 Walker A/P-loop; other site 883004313 ATP binding site [chemical binding]; other site 883004314 Q-loop/lid; other site 883004315 ABC transporter signature motif; other site 883004316 Walker B; other site 883004317 D-loop; other site 883004318 H-loop/switch region; other site 883004319 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883004320 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 883004321 Walker A/P-loop; other site 883004322 ATP binding site [chemical binding]; other site 883004323 Q-loop/lid; other site 883004324 ABC transporter signature motif; other site 883004325 Walker B; other site 883004326 D-loop; other site 883004327 H-loop/switch region; other site 883004328 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 883004329 TM-ABC transporter signature motif; other site 883004330 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 883004331 TM-ABC transporter signature motif; other site 883004332 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883004333 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 883004334 putative [Fe4-S4] binding site [ion binding]; other site 883004335 putative molybdopterin cofactor binding site [chemical binding]; other site 883004336 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 883004337 putative molybdopterin cofactor binding site; other site 883004338 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 883004339 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883004340 active site 883004341 HIGH motif; other site 883004342 nucleotide binding site [chemical binding]; other site 883004343 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 883004344 KMSKS motif; other site 883004345 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 883004346 GTPase RsgA; Reviewed; Region: PRK01889 883004347 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 883004348 GTPase/OB domain interface [polypeptide binding]; other site 883004349 GTPase/Zn-binding domain interface [polypeptide binding]; other site 883004350 GTP/Mg2+ binding site [chemical binding]; other site 883004351 G4 box; other site 883004352 G5 box; other site 883004353 G1 box; other site 883004354 Switch I region; other site 883004355 G2 box; other site 883004356 G3 box; other site 883004357 Switch II region; other site 883004358 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 883004359 Coenzyme A binding pocket [chemical binding]; other site 883004360 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 883004361 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 883004362 LysE type translocator; Region: LysE; cl00565 883004363 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 883004364 Cytochrome c552; Region: Cytochrom_C552; pfam02335 883004365 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 883004366 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883004367 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 883004368 dimer interface [polypeptide binding]; other site 883004369 phosphorylation site [posttranslational modification] 883004370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004371 ATP binding site [chemical binding]; other site 883004372 Mg2+ binding site [ion binding]; other site 883004373 G-X-G motif; other site 883004374 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004375 active site 883004376 phosphorylation site [posttranslational modification] 883004377 intermolecular recognition site; other site 883004378 dimerization interface [polypeptide binding]; other site 883004379 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 883004380 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 883004381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004382 active site 883004383 phosphorylation site [posttranslational modification] 883004384 intermolecular recognition site; other site 883004385 dimerization interface [polypeptide binding]; other site 883004386 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 883004387 Walker A motif; other site 883004388 ATP binding site [chemical binding]; other site 883004389 Walker B motif; other site 883004390 arginine finger; other site 883004391 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883004392 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 883004393 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 883004394 metal ion-dependent adhesion site (MIDAS); other site 883004395 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 883004396 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 883004397 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 883004398 active site 883004399 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 883004400 active site 883004401 N-terminal domain interface [polypeptide binding]; other site 883004402 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 883004403 putative PBP binding regions; other site 883004404 ABC-ATPase subunit interface; other site 883004405 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 883004406 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 883004407 Walker A/P-loop; other site 883004408 ATP binding site [chemical binding]; other site 883004409 Q-loop/lid; other site 883004410 ABC transporter signature motif; other site 883004411 Walker B; other site 883004412 D-loop; other site 883004413 H-loop/switch region; other site 883004414 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 883004415 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 883004416 intersubunit interface [polypeptide binding]; other site 883004417 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 883004418 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 883004419 Cache domain; Region: Cache_1; pfam02743 883004420 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 883004421 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883004422 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883004423 Protein of unknown function (DUF330); Region: DUF330; cl01135 883004424 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 883004425 mce related protein; Region: MCE; cl15431 883004426 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 883004427 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 883004428 Walker A/P-loop; other site 883004429 ATP binding site [chemical binding]; other site 883004430 Q-loop/lid; other site 883004431 ABC transporter signature motif; other site 883004432 Walker B; other site 883004433 D-loop; other site 883004434 H-loop/switch region; other site 883004435 Domain of unknown function DUF140; Region: DUF140; cl00510 883004436 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 883004437 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 883004438 putative active site [active] 883004439 metal binding site [ion binding]; metal-binding site 883004440 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883004441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 883004442 active site 883004443 phosphorylation site [posttranslational modification] 883004444 intermolecular recognition site; other site 883004445 dimerization interface [polypeptide binding]; other site 883004446 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 883004447 Walker A motif; other site 883004448 ATP binding site [chemical binding]; other site 883004449 Walker B motif; other site 883004450 arginine finger; other site 883004451 Helix-turn-helix domains; Region: HTH; cl00088 883004452 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 883004453 homotrimer interaction site [polypeptide binding]; other site 883004454 putative active site [active] 883004455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004456 Zn2+ binding site [ion binding]; other site 883004457 Mg2+ binding site [ion binding]; other site 883004458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004459 metal binding site [ion binding]; metal-binding site 883004460 active site 883004461 I-site; other site 883004462 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 883004463 Protein export membrane protein; Region: SecD_SecF; cl14618 883004464 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 883004465 Helix-turn-helix domains; Region: HTH; cl00088 883004466 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 883004467 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 883004468 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883004469 NADH dehydrogenase; Region: NADHdh; cl00469 883004470 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 883004471 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 883004472 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 883004473 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 883004474 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 883004475 Flavin Reductases; Region: FlaRed; cl00801 883004476 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 883004477 Chromate transporter; Region: Chromate_transp; pfam02417 883004478 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 883004479 Chromate transporter; Region: Chromate_transp; pfam02417 883004480 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 883004481 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 883004482 putative active site [active] 883004483 catalytic site [active] 883004484 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 883004485 putative active site [active] 883004486 catalytic site [active] 883004487 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 883004488 Ligand Binding Site [chemical binding]; other site 883004489 PAS fold; Region: PAS_4; pfam08448 883004490 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 883004491 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883004492 PAS domain S-box; Region: sensory_box; TIGR00229 883004493 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004494 putative active site [active] 883004495 heme pocket [chemical binding]; other site 883004496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004497 metal binding site [ion binding]; metal-binding site 883004498 active site 883004499 I-site; other site 883004500 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 883004501 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 883004502 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 883004503 dimer interface [polypeptide binding]; other site 883004504 active site 883004505 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883004506 catalytic residues [active] 883004507 substrate binding site [chemical binding]; other site 883004508 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 883004509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004510 arginine decarboxylase; Provisional; Region: PRK05354 883004511 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 883004512 dimer interface [polypeptide binding]; other site 883004513 active site 883004514 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883004515 catalytic residues [active] 883004516 substrate binding site [chemical binding]; other site 883004517 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 883004518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004519 metal binding site [ion binding]; metal-binding site 883004520 active site 883004521 I-site; other site 883004522 multifunctional aminopeptidase A; Provisional; Region: PRK00913 883004523 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 883004524 interface (dimer of trimers) [polypeptide binding]; other site 883004525 Substrate-binding/catalytic site; other site 883004526 Zn-binding sites [ion binding]; other site 883004527 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 883004528 Malic enzyme, N-terminal domain; Region: malic; pfam00390 883004529 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 883004530 putative NAD(P) binding site [chemical binding]; other site 883004531 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 883004532 Cation transport protein; Region: TrkH; cl10514 883004533 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 883004534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004535 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; cl15357 883004536 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 883004537 EamA-like transporter family; Region: EamA; cl01037 883004538 EamA-like transporter family; Region: EamA; cl01037 883004539 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 883004540 Response regulator receiver domain; Region: Response_reg; pfam00072 883004541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004542 active site 883004543 phosphorylation site [posttranslational modification] 883004544 intermolecular recognition site; other site 883004545 dimerization interface [polypeptide binding]; other site 883004546 PAS fold; Region: PAS_4; pfam08448 883004547 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004548 putative active site [active] 883004549 heme pocket [chemical binding]; other site 883004550 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883004551 metal binding site [ion binding]; metal-binding site 883004552 active site 883004553 I-site; other site 883004554 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 883004555 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883004556 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883004557 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 883004558 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 883004559 putative active site [active] 883004560 rare lipoprotein A; Region: rlpA; TIGR00413 883004561 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 883004562 Sporulation related domain; Region: SPOR; cl10051 883004563 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 883004564 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 883004565 active site 883004566 catalytic residues [active] 883004567 metal binding site [ion binding]; metal-binding site 883004568 Cache domain; Region: Cache_1; pfam02743 883004569 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 883004570 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 883004571 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 883004572 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 883004573 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 883004574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883004575 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 883004576 catalytic triad [active] 883004577 Transcriptional regulators [Transcription]; Region: MarR; COG1846 883004578 Helix-turn-helix domains; Region: HTH; cl00088 883004579 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; cl15357 883004580 transmembrane helices; other site 883004581 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 883004582 IHF - DNA interface [nucleotide binding]; other site 883004583 IHF dimer interface [polypeptide binding]; other site 883004584 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 883004585 HIT family signature motif; other site 883004586 catalytic residue [active] 883004587 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]; Region: ELP3; COG1243 883004588 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 883004589 ligand binding site [chemical binding]; other site 883004590 active site 883004591 UGI interface [polypeptide binding]; other site 883004592 catalytic site [active] 883004593 aspartate aminotransferase; Provisional; Region: PRK05764 883004594 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 883004595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883004596 homodimer interface [polypeptide binding]; other site 883004597 catalytic residue [active] 883004598 FAD binding domain; Region: FAD_binding_4; pfam01565 883004599 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883004600 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883004601 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 883004602 dimer interface [polypeptide binding]; other site 883004603 conserved gate region; other site 883004604 putative PBP binding loops; other site 883004605 ABC-ATPase subunit interface; other site 883004606 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883004607 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 883004608 Walker A/P-loop; other site 883004609 ATP binding site [chemical binding]; other site 883004610 Q-loop/lid; other site 883004611 ABC transporter signature motif; other site 883004612 Walker B; other site 883004613 D-loop; other site 883004614 H-loop/switch region; other site 883004615 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883004616 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 883004617 dimer interface [polypeptide binding]; other site 883004618 conserved gate region; other site 883004619 putative PBP binding loops; other site 883004620 ABC-ATPase subunit interface; other site 883004621 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 883004622 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883004623 substrate binding pocket [chemical binding]; other site 883004624 membrane-bound complex binding site; other site 883004625 hinge residues; other site 883004626 Flavin Reductases; Region: FlaRed; cl00801 883004627 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 883004628 Bacterial sugar transferase; Region: Bac_transf; cl00939 883004629 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 883004630 putative active site [active] 883004631 putative transporter; Provisional; Region: PRK11660 883004632 Permease family; Region: Xan_ur_permease; cl00967 883004633 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 883004634 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883004635 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883004636 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 883004637 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 883004638 NodB motif; other site 883004639 active site 883004640 catalytic site [active] 883004641 metal binding site [ion binding]; metal-binding site 883004642 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883004643 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883004644 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 883004645 TM-ABC transporter signature motif; other site 883004646 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 883004647 TM-ABC transporter signature motif; other site 883004648 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883004649 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 883004650 Walker A/P-loop; other site 883004651 ATP binding site [chemical binding]; other site 883004652 Q-loop/lid; other site 883004653 ABC transporter signature motif; other site 883004654 Walker B; other site 883004655 D-loop; other site 883004656 H-loop/switch region; other site 883004657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883004658 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 883004659 Walker A/P-loop; other site 883004660 ATP binding site [chemical binding]; other site 883004661 Q-loop/lid; other site 883004662 ABC transporter signature motif; other site 883004663 Walker B; other site 883004664 D-loop; other site 883004665 H-loop/switch region; other site 883004666 FOG: CBS domain [General function prediction only]; Region: COG0517 883004667 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 883004668 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 883004669 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 883004670 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883004671 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883004672 Walker A/P-loop; other site 883004673 ATP binding site [chemical binding]; other site 883004674 Q-loop/lid; other site 883004675 ABC transporter signature motif; other site 883004676 Walker B; other site 883004677 D-loop; other site 883004678 H-loop/switch region; other site 883004679 TOBE domain; Region: TOBE_2; cl01440 883004680 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 883004681 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 883004682 dimer interface [polypeptide binding]; other site 883004683 conserved gate region; other site 883004684 putative PBP binding loops; other site 883004685 ABC-ATPase subunit interface; other site 883004686 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 883004687 dimer interface [polypeptide binding]; other site 883004688 conserved gate region; other site 883004689 putative PBP binding loops; other site 883004690 ABC-ATPase subunit interface; other site 883004691 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883004692 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883004693 Walker A/P-loop; other site 883004694 ATP binding site [chemical binding]; other site 883004695 Q-loop/lid; other site 883004696 ABC transporter signature motif; other site 883004697 Walker B; other site 883004698 D-loop; other site 883004699 H-loop/switch region; other site 883004700 TOBE domain; Region: TOBE_2; cl01440 883004701 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 883004702 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 883004703 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 883004704 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 883004705 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 883004706 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 883004707 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 883004708 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 883004709 NADH dehydrogenase; Region: NADHdh; cl00469 883004710 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 883004711 4Fe-4S binding domain; Region: Fer4; cl02805 883004712 4Fe-4S binding domain; Region: Fer4; cl02805 883004713 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 883004714 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 883004715 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 883004716 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 883004717 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883004718 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 883004719 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883004720 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 883004721 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883004722 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883004723 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 883004724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004725 active site 883004726 phosphorylation site [posttranslational modification] 883004727 intermolecular recognition site; other site 883004728 dimerization interface [polypeptide binding]; other site 883004729 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 883004730 DNA binding residues [nucleotide binding] 883004731 dimerization interface [polypeptide binding]; other site 883004732 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 883004733 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 883004734 substrate binding pocket [chemical binding]; other site 883004735 membrane-bound complex binding site; other site 883004736 hinge residues; other site 883004737 Histidine kinase; Region: HisKA_3; pfam07730 883004738 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004739 ATP binding site [chemical binding]; other site 883004740 Mg2+ binding site [ion binding]; other site 883004741 G-X-G motif; other site 883004742 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 883004743 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 883004744 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883004745 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 883004746 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 883004747 putative [Fe4-S4] binding site [ion binding]; other site 883004748 putative molybdopterin cofactor binding site [chemical binding]; other site 883004749 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 883004750 putative molybdopterin cofactor binding site; other site 883004751 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 883004752 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 883004753 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 883004754 putative MPT binding site; other site 883004755 Cupin domain; Region: Cupin_2; cl09118 883004756 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 883004757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883004758 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 883004759 Flagellar hook capping protein; Region: FlgD; cl04347 883004760 MG2 domain; Region: A2M_N; pfam01835 883004761 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 883004762 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883004763 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 883004764 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883004765 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 883004766 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 883004767 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883004768 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 883004769 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 883004770 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883004771 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883004772 flagellar capping protein; Provisional; Region: PRK12765 883004773 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 883004774 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 883004775 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883004776 flagellin; Provisional; Region: PRK12802 883004777 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883004778 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 883004779 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883004780 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; cl15358 883004781 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 883004782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004783 active site 883004784 phosphorylation site [posttranslational modification] 883004785 intermolecular recognition site; other site 883004786 dimerization interface [polypeptide binding]; other site 883004787 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 883004788 DNA binding site [nucleotide binding] 883004789 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 883004790 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 883004791 dimer interface [polypeptide binding]; other site 883004792 phosphorylation site [posttranslational modification] 883004793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004794 ATP binding site [chemical binding]; other site 883004795 Mg2+ binding site [ion binding]; other site 883004796 G-X-G motif; other site 883004797 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 883004798 Ca2+ binding site [ion binding]; other site 883004799 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883004800 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883004801 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 883004802 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883004803 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883004804 Walker A/P-loop; other site 883004805 ATP binding site [chemical binding]; other site 883004806 Q-loop/lid; other site 883004807 ABC transporter signature motif; other site 883004808 Walker B; other site 883004809 D-loop; other site 883004810 H-loop/switch region; other site 883004811 FtsX-like permease family; Region: FtsX; pfam02687 883004812 osmolarity response regulator; Provisional; Region: ompR; PRK09468 883004813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883004814 active site 883004815 phosphorylation site [posttranslational modification] 883004816 intermolecular recognition site; other site 883004817 dimerization interface [polypeptide binding]; other site 883004818 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 883004819 DNA binding site [nucleotide binding] 883004820 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 883004821 dimerization interface [polypeptide binding]; other site 883004822 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 883004823 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004824 ATP binding site [chemical binding]; other site 883004825 Mg2+ binding site [ion binding]; other site 883004826 G-X-G motif; other site 883004827 Cache domain; Region: Cache_1; pfam02743 883004828 PAS fold; Region: PAS_4; pfam08448 883004829 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883004830 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883004831 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 883004832 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 883004833 non-specific DNA binding site [nucleotide binding]; other site 883004834 salt bridge; other site 883004835 sequence-specific DNA binding site [nucleotide binding]; other site 883004836 Phage-related protein, tail component [Function unknown]; Region: COG4733 883004837 Mu-like prophage protein [General function prediction only]; Region: COG3941 883004838 tape measure domain; Region: tape_meas_nterm; TIGR02675 883004839 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 883004840 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 883004841 HIRAN domain; Region: HIRAN; cl07418 883004842 BRO family, N-terminal domain; Region: Bro-N; cl10591 883004843 P63C domain; Region: P63C; pfam10546 883004844 Phage major tail protein 2; Region: Phage_tail_2; cl11463 883004845 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 883004846 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 883004847 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 883004848 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 883004849 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 883004850 oligomerization interface [polypeptide binding]; other site 883004851 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 883004852 RF-1 domain; Region: RF-1; cl02875 883004853 Phage capsid family; Region: Phage_capsid; pfam05065 883004854 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 883004855 Phage portal protein; Region: Phage_portal; pfam04860 883004856 Phage-related protein [Function unknown]; Region: COG4695; cl01923 883004857 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 883004858 Phage Terminase; Region: Terminase_1; pfam03354 883004859 Phage terminase, small subunit; Region: Terminase_4; cl01525 883004860 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 883004861 active site 883004862 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 883004863 virion protein; Provisional; Region: V; PHA02564 883004864 OpgC protein; Region: OpgC_C; cl00792 883004865 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 883004866 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 883004867 non-specific DNA binding site [nucleotide binding]; other site 883004868 salt bridge; other site 883004869 sequence-specific DNA binding site [nucleotide binding]; other site 883004870 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 883004871 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883004872 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 883004873 Catalytic site [active] 883004874 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 883004875 chaperone protein DnaJ; Provisional; Region: PRK10767 883004876 Phage integrase family; Region: Phage_integrase; pfam00589 883004877 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 883004878 DNA binding site [nucleotide binding] 883004879 Int/Topo IB signature motif; other site 883004880 active site 883004881 catalytic residues [active] 883004882 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 883004883 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 883004884 PAS domain S-box; Region: sensory_box; TIGR00229 883004885 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883004886 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 883004887 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883004888 Walker A motif; other site 883004889 ATP binding site [chemical binding]; other site 883004890 Walker B motif; other site 883004891 arginine finger; other site 883004892 Helix-turn-helix domains; Region: HTH; cl00088 883004893 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883004894 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 883004895 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 883004896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883004897 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 883004898 catalytic core [active] 883004899 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 883004900 dimerization interface [polypeptide binding]; other site 883004901 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883004902 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883004903 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 883004904 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cd00522 883004905 octamerization interface [polypeptide binding]; other site 883004906 diferric-oxygen binding site [ion binding]; other site 883004907 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 883004908 active site 883004909 dimerization interface [polypeptide binding]; other site 883004910 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883004911 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883004912 putative active site [active] 883004913 heme pocket [chemical binding]; other site 883004914 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 883004915 dimer interface [polypeptide binding]; other site 883004916 phosphorylation site [posttranslational modification] 883004917 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883004918 ATP binding site [chemical binding]; other site 883004919 Mg2+ binding site [ion binding]; other site 883004920 G-X-G motif; other site 883004921 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 883004922 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 883004923 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 883004924 FeS/SAM binding site; other site 883004925 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 883004926 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 883004927 RNA binding site [nucleotide binding]; other site 883004928 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 883004929 RNA binding site [nucleotide binding]; other site 883004930 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 883004931 RNA binding site [nucleotide binding]; other site 883004932 S1_RPS1_repeat_ec4: 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 883004933 RNA binding site [nucleotide binding]; other site 883004934 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 883004935 RNA binding site [nucleotide binding]; other site 883004936 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 883004937 RNA binding site [nucleotide binding]; other site 883004938 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 883004939 tandem repeat interface [polypeptide binding]; other site 883004940 oligomer interface [polypeptide binding]; other site 883004941 active site residues [active] 883004942 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 883004943 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 883004944 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 883004945 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 883004946 glutaminase active site [active] 883004947 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 883004948 dimer interface [polypeptide binding]; other site 883004949 active site 883004950 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 883004951 dimer interface [polypeptide binding]; other site 883004952 active site 883004953 Domain of unknown function DUF20; Region: UPF0118; cl00465 883004954 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 883004955 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 883004956 ligand binding site [chemical binding]; other site 883004957 flexible hinge region; other site 883004958 Helix-turn-helix domains; Region: HTH; cl00088 883004959 Ferredoxin [Energy production and conversion]; Region: COG1146 883004960 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883004961 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 883004962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004963 domain; Region: Succ_DH_flav_C; pfam02910 883004964 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883004965 DNA polymerase I; Provisional; Region: PRK05755 883004966 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 883004967 active site 883004968 metal binding site 1 [ion binding]; metal-binding site 883004969 putative 5' ssDNA interaction site; other site 883004970 metal binding site 3; metal-binding site 883004971 metal binding site 2 [ion binding]; metal-binding site 883004972 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 883004973 putative DNA binding site [nucleotide binding]; other site 883004974 putative metal binding site [ion binding]; other site 883004975 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 883004976 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 883004977 active site 883004978 DNA binding site [nucleotide binding] 883004979 catalytic site [active] 883004980 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 883004981 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; cl12011 883004982 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 883004983 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 883004984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883004985 catalytic residue [active] 883004986 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 883004987 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 883004988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883004989 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 883004990 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883004991 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883004992 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883004993 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 883004994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883004995 Zn2+ binding site [ion binding]; other site 883004996 Mg2+ binding site [ion binding]; other site 883004997 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; cl00290 883004998 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 883004999 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883005000 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 883005001 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 883005002 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883005003 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 883005004 AIR carboxylase; Region: AIRC; cl00310 883005005 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 883005006 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 883005007 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 883005008 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883005009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005010 Walker A/P-loop; other site 883005011 ATP binding site [chemical binding]; other site 883005012 Q-loop/lid; other site 883005013 ABC transporter signature motif; other site 883005014 Walker B; other site 883005015 D-loop; other site 883005016 H-loop/switch region; other site 883005017 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 883005018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005019 ATP binding site [chemical binding]; other site 883005020 Mg2+ binding site [ion binding]; other site 883005021 G-X-G motif; other site 883005022 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 883005023 ATP binding site [chemical binding]; other site 883005024 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 883005025 Response regulator receiver domain; Region: Response_reg; pfam00072 883005026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005027 active site 883005028 phosphorylation site [posttranslational modification] 883005029 intermolecular recognition site; other site 883005030 dimerization interface [polypeptide binding]; other site 883005031 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883005032 PAS fold; Region: PAS_3; pfam08447 883005033 putative active site [active] 883005034 heme pocket [chemical binding]; other site 883005035 sensor protein ZraS; Provisional; Region: PRK10364 883005036 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 883005037 dimer interface [polypeptide binding]; other site 883005038 phosphorylation site [posttranslational modification] 883005039 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883005040 heme-binding residues [chemical binding]; other site 883005041 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 883005042 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 883005043 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 883005044 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 883005045 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 883005046 NADP binding site [chemical binding]; other site 883005047 homopentamer interface [polypeptide binding]; other site 883005048 substrate binding site [chemical binding]; other site 883005049 active site 883005050 Flagellin N-methylase; Region: FliB; cl00497 883005051 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 883005052 Catalytic domain of Protein Kinases; Region: PKc; cd00180 883005053 active site 883005054 ATP binding site [chemical binding]; other site 883005055 substrate binding site [chemical binding]; other site 883005056 activation loop (A-loop); other site 883005057 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 883005058 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 883005059 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 883005060 active site 883005061 metal binding site [ion binding]; metal-binding site 883005062 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 883005063 TPR motif; other site 883005064 isocitrate dehydrogenase; Validated; Region: PRK06451 883005065 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 883005066 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 883005067 substrate binding site [chemical binding]; other site 883005068 active site 883005069 catalytic residues [active] 883005070 heterodimer interface [polypeptide binding]; other site 883005071 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 883005072 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 883005073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005074 catalytic residue [active] 883005075 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 monomeric; Region: PRAI; cd00405 883005076 active site 883005077 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 883005078 active site 883005079 ribulose/triose binding site [chemical binding]; other site 883005080 phosphate binding site [ion binding]; other site 883005081 substrate (anthranilate) binding pocket [chemical binding]; other site 883005082 product (indole) binding pocket [chemical binding]; other site 883005083 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 883005084 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 883005085 Glutamine amidotransferase class-I; Region: GATase; pfam00117 883005086 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 883005087 glutamine binding [chemical binding]; other site 883005088 catalytic triad [active] 883005089 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 883005090 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 883005091 chorismate binding enzyme; Region: Chorismate_bind; cl10555 883005092 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 883005093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005094 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 883005095 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 883005096 hinge; other site 883005097 active site 883005098 Chorismate mutase type II; Region: CM_2; cl00693 883005099 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 883005100 Prephenate dehydratase; Region: PDT; pfam00800 883005101 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 883005102 putative L-Phe binding site [chemical binding]; other site 883005103 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 883005104 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 883005105 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 883005106 putative active site; other site 883005107 catalytic residue [active] 883005108 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 883005109 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 883005110 DHH family; Region: DHH; pfam01368 883005111 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 883005112 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 883005113 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 883005114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005115 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 883005116 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 883005117 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 883005118 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 883005119 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 883005120 Cl- selectivity filter; other site 883005121 Cl- binding residues [ion binding]; other site 883005122 pore gating glutamate residue; other site 883005123 dimer interface [polypeptide binding]; other site 883005124 FOG: CBS domain [General function prediction only]; Region: COG0517 883005125 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 883005126 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 883005127 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 883005128 active site 883005129 Riboflavin kinase; Region: Flavokinase; cl03312 883005130 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 883005131 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883005132 Walker A motif; other site 883005133 ATP binding site [chemical binding]; other site 883005134 Walker B motif; other site 883005135 arginine finger; other site 883005136 Helix-turn-helix domains; Region: HTH; cl00088 883005137 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883005138 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 883005139 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 883005140 Walker A motif; other site 883005141 ATP binding site [chemical binding]; other site 883005142 Walker B motif; other site 883005143 arginine finger; other site 883005144 Helix-turn-helix domains; Region: HTH; cl00088 883005145 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 883005146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005147 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 883005148 dimer interface [polypeptide binding]; other site 883005149 phosphorylation site [posttranslational modification] 883005150 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005151 ATP binding site [chemical binding]; other site 883005152 Mg2+ binding site [ion binding]; other site 883005153 G-X-G motif; other site 883005154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005155 active site 883005156 phosphorylation site [posttranslational modification] 883005157 intermolecular recognition site; other site 883005158 dimerization interface [polypeptide binding]; other site 883005159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005160 Response regulator receiver domain; Region: Response_reg; pfam00072 883005161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005162 active site 883005163 phosphorylation site [posttranslational modification] 883005164 intermolecular recognition site; other site 883005165 dimerization interface [polypeptide binding]; other site 883005166 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005167 Response regulator receiver domain; Region: Response_reg; pfam00072 883005168 active site 883005169 phosphorylation site [posttranslational modification] 883005170 intermolecular recognition site; other site 883005171 dimerization interface [polypeptide binding]; other site 883005172 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883005173 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 883005174 dimer interface [polypeptide binding]; other site 883005175 phosphorylation site [posttranslational modification] 883005176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005177 ATP binding site [chemical binding]; other site 883005178 G-X-G motif; other site 883005179 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 883005180 acetyl-CoA synthetase; Provisional; Region: PRK00174 883005181 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 883005182 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883005183 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 883005184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005185 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 883005186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 883005187 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 883005188 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 883005189 putative active site [active] 883005190 putative NTP binding site [chemical binding]; other site 883005191 putative nucleic acid binding site [nucleotide binding]; other site 883005192 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 883005193 tetrameric interface [polypeptide binding]; other site 883005194 activator binding site; other site 883005195 NADP binding site [chemical binding]; other site 883005196 substrate binding site [chemical binding]; other site 883005197 catalytic residues [active] 883005198 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 883005199 CheD chemotactic sensory transduction; Region: CheD; cl00810 883005200 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 883005201 IHF - DNA interface [nucleotide binding]; other site 883005202 IHF dimer interface [polypeptide binding]; other site 883005203 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 883005204 Protein of unknown function (DUF523); Region: DUF523; cl00733 883005205 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 883005206 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883005207 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 883005208 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 883005209 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 883005210 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 883005211 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 883005212 2-isopropylmalate synthase; Validated; Region: PRK00915 883005213 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 883005214 active site 883005215 catalytic residues [active] 883005216 metal binding site [ion binding]; metal-binding site 883005217 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 883005218 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 883005219 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 883005220 substrate binding site [chemical binding]; other site 883005221 ligand binding site [chemical binding]; other site 883005222 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 883005223 substrate binding site [chemical binding]; other site 883005224 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 883005225 tartrate dehydrogenase; Provisional; Region: PRK08194 883005226 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 883005227 S-adenosylmethionine binding site [chemical binding]; other site 883005228 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 883005229 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 883005230 dimer interface [polypeptide binding]; other site 883005231 putative functional site; other site 883005232 putative MPT binding site; other site 883005233 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 883005234 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 883005235 Walker A motif; other site 883005236 ATP binding site [chemical binding]; other site 883005237 Walker B motif; other site 883005238 arginine finger; other site 883005239 large tegument protein UL36; Provisional; Region: PHA03247 883005240 phage shock protein A; Region: phageshock_pspA; TIGR02977 883005241 Phage shock protein B; Region: PspB; cl05946 883005242 phage shock protein C; Region: phageshock_pspC; TIGR02978 883005243 PspC domain; Region: PspC; cl00864 883005244 EamA-like transporter family; Region: EamA; cl01037 883005245 EamA-like transporter family; Region: EamA; cl01037 883005246 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 883005247 catalytic residues [active] 883005248 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883005249 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 883005250 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 883005251 Zn binding site [ion binding]; other site 883005252 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl11561 883005253 EamA-like transporter family; Region: EamA; cl01037 883005254 EamA-like transporter family; Region: EamA; cl01037 883005255 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 883005256 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883005257 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 883005258 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883005259 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 883005260 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 883005261 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 883005262 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 883005263 homodimer interface [polypeptide binding]; other site 883005264 NADP binding site [chemical binding]; other site 883005265 substrate binding site [chemical binding]; other site 883005266 enolase; Provisional; Region: eno; PRK00077 883005267 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 883005268 dimer interface [polypeptide binding]; other site 883005269 metal binding site [ion binding]; metal-binding site 883005270 substrate binding pocket [chemical binding]; other site 883005271 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 883005272 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 883005273 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 883005274 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 883005275 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 883005276 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 883005277 FeS/SAM binding site; other site 883005278 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 883005279 Class III ribonucleotide reductase; Region: RNR_III; cd01675 883005280 effector binding site; other site 883005281 active site 883005282 Zn binding site [ion binding]; other site 883005283 glycine loop; other site 883005284 Tir chaperone protein (CesT); Region: CesT; cl08444 883005285 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 883005286 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 883005287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005288 homodimer interface [polypeptide binding]; other site 883005289 catalytic residue [active] 883005290 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 883005291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883005292 Zn2+ binding site [ion binding]; other site 883005293 Mg2+ binding site [ion binding]; other site 883005294 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 883005295 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 883005296 Walker A/P-loop; other site 883005297 ATP binding site [chemical binding]; other site 883005298 Q-loop/lid; other site 883005299 ABC transporter signature motif; other site 883005300 Walker B; other site 883005301 D-loop; other site 883005302 H-loop/switch region; other site 883005303 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883005304 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 883005305 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 883005306 Walker A/P-loop; other site 883005307 ATP binding site [chemical binding]; other site 883005308 Q-loop/lid; other site 883005309 ABC transporter signature motif; other site 883005310 Walker B; other site 883005311 D-loop; other site 883005312 H-loop/switch region; other site 883005313 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883005314 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 883005315 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 883005316 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 883005317 dimer interface [polypeptide binding]; other site 883005318 conserved gate region; other site 883005319 putative PBP binding loops; other site 883005320 ABC-ATPase subunit interface; other site 883005321 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 883005322 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 883005323 dimer interface [polypeptide binding]; other site 883005324 conserved gate region; other site 883005325 putative PBP binding loops; other site 883005326 ABC-ATPase subunit interface; other site 883005327 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 883005328 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 883005329 Helix-turn-helix domains; Region: HTH; cl00088 883005330 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 883005331 NeuB family; Region: NeuB; cl00496 883005332 SAF domain; Region: SAF; cl00555 883005333 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 883005334 active site 883005335 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 883005336 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; cl12011 883005337 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; cl12011 883005338 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 883005339 active site 883005340 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 883005341 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 883005342 active site 883005343 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 883005344 FeS/SAM binding site; other site 883005345 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 883005346 S-adenosylmethionine binding site [chemical binding]; other site 883005347 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 883005348 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 883005349 active site 883005350 metal-binding site 883005351 mycofactocin system glycosyltransferase; Region: actino_glycTran; TIGR03965 883005352 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 883005353 active site 883005354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883005355 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 883005356 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 883005357 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 883005358 trimer interface [polypeptide binding]; other site 883005359 active site 883005360 substrate binding site [chemical binding]; other site 883005361 CoA binding site [chemical binding]; other site 883005362 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 883005363 ligand binding site; other site 883005364 tetramer interface; other site 883005365 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 883005366 NeuB family; Region: NeuB; cl00496 883005367 SAF domain; Region: SAF; cl00555 883005368 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 883005369 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 883005370 active site 883005371 homodimer interface [polypeptide binding]; other site 883005372 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 883005373 putative active site [active] 883005374 putative metal binding site [ion binding]; other site 883005375 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 883005376 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 883005377 FeS/SAM binding site; other site 883005378 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 883005379 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 883005380 S-adenosylmethionine binding site [chemical binding]; other site 883005381 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 883005382 active site 883005383 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 883005384 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 883005385 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 883005386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005387 NAD(P) binding site [chemical binding]; other site 883005388 active site 883005389 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; cl12011 883005390 Domain of unknown function (DUF74); Region: DUF74; cl00426 883005391 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 883005392 hypothetical protein; Provisional; Region: PRK13560 883005393 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883005394 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883005395 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883005396 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 883005397 dimer interface [polypeptide binding]; other site 883005398 phosphorylation site [posttranslational modification] 883005399 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005400 ATP binding site [chemical binding]; other site 883005401 Mg2+ binding site [ion binding]; other site 883005402 G-X-G motif; other site 883005403 Response regulator receiver domain; Region: Response_reg; pfam00072 883005404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005405 active site 883005406 phosphorylation site [posttranslational modification] 883005407 intermolecular recognition site; other site 883005408 dimerization interface [polypeptide binding]; other site 883005409 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883005410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005411 active site 883005412 phosphorylation site [posttranslational modification] 883005413 intermolecular recognition site; other site 883005414 dimerization interface [polypeptide binding]; other site 883005415 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 883005416 Walker A motif; other site 883005417 ATP binding site [chemical binding]; other site 883005418 Walker B motif; other site 883005419 arginine finger; other site 883005420 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 883005421 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 883005422 dimer interface [polypeptide binding]; other site 883005423 PYR/PP interface [polypeptide binding]; other site 883005424 TPP binding site [chemical binding]; other site 883005425 substrate binding site [chemical binding]; other site 883005426 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 883005427 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 883005428 Domain of unknown function; Region: EKR; cl11037 883005429 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 883005430 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 883005431 TPP-binding site [chemical binding]; other site 883005432 dimer interface [polypeptide binding]; other site 883005433 L-lactate permease; Region: Lactate_perm; cl00701 883005434 glycolate transporter; Provisional; Region: PRK09695 883005435 FAD binding domain; Region: FAD_binding_4; pfam01565 883005436 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883005437 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883005438 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 883005439 Cysteine-rich domain; Region: CCG; pfam02754 883005440 Cysteine-rich domain; Region: CCG; pfam02754 883005441 phosphate acetyltransferase; Reviewed; Region: PRK05632 883005442 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005443 DRTGG domain; Region: DRTGG; cl12147 883005444 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 883005445 Acetokinase family; Region: Acetate_kinase; cl01029 883005446 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 883005447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005448 DRTGG domain; Region: DRTGG; cl12147 883005449 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 883005450 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 883005451 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 883005452 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883005453 Cysteine-rich domain; Region: CCG; pfam02754 883005454 Cysteine-rich domain; Region: CCG; pfam02754 883005455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 883005456 Cache domain; Region: Cache_2; cl07034 883005457 two component system sensor kinase SsrA; Provisional; Region: PRK15347 883005458 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 883005459 dimerization interface [polypeptide binding]; other site 883005460 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883005461 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883005462 Uncharacterized conserved protein [Function unknown]; Region: COG2006 883005463 Domain of unknown function (DUF362); Region: DUF362; pfam04015 883005464 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 883005465 active site residue [active] 883005466 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 883005467 diiron binding motif [ion binding]; other site 883005468 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 883005469 Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]; Region: MoaA; COG2896 883005470 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 883005471 FeS/SAM binding site; other site 883005472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 883005473 putative diguanylate cyclase; Provisional; Region: PRK09776 883005474 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 883005475 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 883005476 dimer interface [polypeptide binding]; other site 883005477 phosphorylation site [posttranslational modification] 883005478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005479 ATP binding site [chemical binding]; other site 883005480 G-X-G motif; other site 883005481 Response regulator receiver domain; Region: Response_reg; pfam00072 883005482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005483 active site 883005484 phosphorylation site [posttranslational modification] 883005485 intermolecular recognition site; other site 883005486 dimerization interface [polypeptide binding]; other site 883005487 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 883005488 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 883005489 transcriptional regulator NarL; Provisional; Region: PRK10651 883005490 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 883005491 DNA binding residues [nucleotide binding] 883005492 dimerization interface [polypeptide binding]; other site 883005493 Autotransporter beta-domain; Region: Autotransporter; cl02365 883005494 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883005495 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 883005496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883005497 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883005498 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 883005499 putative valine binding site [chemical binding]; other site 883005500 dimer interface [polypeptide binding]; other site 883005501 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 883005502 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883005503 PYR/PP interface [polypeptide binding]; other site 883005504 dimer interface [polypeptide binding]; other site 883005505 TPP binding site [chemical binding]; other site 883005506 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 883005507 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 883005508 TPP-binding site [chemical binding]; other site 883005509 dimer interface [polypeptide binding]; other site 883005510 PilZ domain; Region: PilZ; cl01260 883005511 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 883005512 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 883005513 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 883005514 Probable Catalytic site; other site 883005515 metal-binding site 883005516 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 883005517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 883005518 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 883005519 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 883005520 active site 883005521 NAD binding site [chemical binding]; other site 883005522 metal binding site [ion binding]; metal-binding site 883005523 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 883005524 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 883005525 inhibitor-cofactor binding pocket; inhibition site 883005526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005527 catalytic residue [active] 883005528 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 883005529 active site 883005530 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 883005531 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 883005532 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 883005533 active site 883005534 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 883005535 NeuB family; Region: NeuB; cl00496 883005536 SAF domain; Region: SAF; cl00555 883005537 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 883005538 trimer interface [polypeptide binding]; other site 883005539 active site 883005540 substrate binding site [chemical binding]; other site 883005541 CoA binding site [chemical binding]; other site 883005542 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 883005543 MatE; Region: MatE; cl10513 883005544 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 883005545 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; cl09155 883005546 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883005547 extended (e) SDRs; Region: SDR_e; cd08946 883005548 NAD(P) binding site [chemical binding]; other site 883005549 active site 883005550 substrate binding site [chemical binding]; other site 883005551 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 883005552 Ligand binding site; other site 883005553 oligomer interface; other site 883005554 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 883005555 trimer interface [polypeptide binding]; other site 883005556 active site 883005557 substrate binding site [chemical binding]; other site 883005558 CoA binding site [chemical binding]; other site 883005559 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 883005560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005561 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 883005562 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883005563 hypothetical protein; Provisional; Region: PRK10649 883005564 Sulfatase; Region: Sulfatase; cl10460 883005565 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 883005566 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883005567 catalytic residue [active] 883005568 CHASE4 domain; Region: CHASE4; cl01308 883005569 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883005570 PAS domain S-box; Region: sensory_box; TIGR00229 883005571 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883005572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883005573 metal binding site [ion binding]; metal-binding site 883005574 active site 883005575 I-site; other site 883005576 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 883005577 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 883005578 substrate binding site; other site 883005579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005580 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 883005581 NAD(P) binding site [chemical binding]; other site 883005582 active site 883005583 Cupin domain; Region: Cupin_2; cl09118 883005584 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 883005585 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 883005586 inhibitor-cofactor binding pocket; inhibition site 883005587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005588 catalytic residue [active] 883005589 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 883005590 active site 883005591 Predicted membrane protein [Function unknown]; Region: COG1289 883005592 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 883005593 PQ loop repeat; Region: PQ-loop; cl12056 883005594 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 883005595 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 883005596 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883005597 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883005598 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 883005599 substrate binding pocket [chemical binding]; other site 883005600 membrane-bound complex binding site; other site 883005601 hinge residues; other site 883005602 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 883005603 dimer interface [polypeptide binding]; other site 883005604 conserved gate region; other site 883005605 putative PBP binding loops; other site 883005606 ABC-ATPase subunit interface; other site 883005607 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883005608 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 883005609 Walker A/P-loop; other site 883005610 ATP binding site [chemical binding]; other site 883005611 Q-loop/lid; other site 883005612 ABC transporter signature motif; other site 883005613 Walker B; other site 883005614 D-loop; other site 883005615 H-loop/switch region; other site 883005616 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 883005617 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 883005618 minor groove reading motif; other site 883005619 helix-hairpin-helix signature motif; other site 883005620 substrate binding pocket [chemical binding]; other site 883005621 active site 883005622 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 883005623 active site 883005624 8-oxo-dGMP binding site [chemical binding]; other site 883005625 nudix motif; other site 883005626 metal binding site [ion binding]; metal-binding site 883005627 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 883005628 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 883005629 Putative Catalytic site; other site 883005630 DXD motif; other site 883005631 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883005632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005633 Walker A/P-loop; other site 883005634 ATP binding site [chemical binding]; other site 883005635 Q-loop/lid; other site 883005636 ABC transporter signature motif; other site 883005637 Walker B; other site 883005638 D-loop; other site 883005639 H-loop/switch region; other site 883005640 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883005641 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 883005642 active site 883005643 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 883005644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005646 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 883005647 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 883005648 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 883005649 active site 883005650 Domain of unknown function (DUF336); Region: DUF336; cl01249 883005651 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 883005652 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 883005653 DctM-like transporters; Region: DctM; pfam06808 883005654 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 883005655 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 883005656 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883005657 PAS fold; Region: PAS_4; pfam08448 883005658 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883005659 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 883005660 Walker A motif; other site 883005661 ATP binding site [chemical binding]; other site 883005662 Walker B motif; other site 883005663 arginine finger; other site 883005664 Helix-turn-helix domains; Region: HTH; cl00088 883005665 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 883005666 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 883005667 PYR/PP interface [polypeptide binding]; other site 883005668 dimer interface [polypeptide binding]; other site 883005669 TPP binding site [chemical binding]; other site 883005670 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 883005671 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 883005672 TPP-binding site [chemical binding]; other site 883005673 photolyase PhrII; Region: phr2; TIGR00591 883005674 DNA photolyase; Region: DNA_photolyase; pfam00875 883005675 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 883005676 Response regulator receiver domain; Region: Response_reg; pfam00072 883005677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005678 active site 883005679 phosphorylation site [posttranslational modification] 883005680 intermolecular recognition site; other site 883005681 dimerization interface [polypeptide binding]; other site 883005682 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 883005683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005684 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 883005685 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 883005686 GDP-binding site [chemical binding]; other site 883005687 ACT binding site; other site 883005688 IMP binding site; other site 883005689 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 883005690 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 catalyze...; Region: LT_GEWL; cd00254 883005691 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883005692 catalytic residue [active] 883005693 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 883005694 RNB domain; Region: RNB; pfam00773 883005695 Domain of unknown function (DUF205); Region: DUF205; cl00410 883005696 threonine synthase; Validated; Region: PRK06260 883005697 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 883005698 homodimer interface [polypeptide binding]; other site 883005699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005700 catalytic residue [active] 883005701 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 883005702 purine monophosphate binding site [chemical binding]; other site 883005703 dimer interface [polypeptide binding]; other site 883005704 putative catalytic residues [active] 883005705 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 883005706 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 883005707 G1 box; other site 883005708 GTP/Mg2+ binding site [chemical binding]; other site 883005709 Switch I region; other site 883005710 G2 box; other site 883005711 G3 box; other site 883005712 Switch II region; other site 883005713 G4 box; other site 883005714 G5 box; other site 883005715 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 883005716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005717 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 883005718 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 883005719 active site residue [active] 883005720 EamA-like transporter family; Region: EamA; cl01037 883005721 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 883005722 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 883005723 DNA binding site [nucleotide binding] 883005724 active site 883005725 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 883005726 active site 883005727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883005728 ATP binding site [chemical binding]; other site 883005729 substrate interface [chemical binding]; other site 883005730 Ubiquitin-like proteins; Region: UBQ; cl00155 883005731 Ubiquitin-like proteins; Region: UBQ; cl00155 883005732 charged pocket; other site 883005733 hydrophobic patch; other site 883005734 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 883005735 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 883005736 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 883005737 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 883005738 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 883005739 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 883005740 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 883005741 dimer interface [polypeptide binding]; other site 883005742 conserved gate region; other site 883005743 putative PBP binding loops; other site 883005744 ABC-ATPase subunit interface; other site 883005745 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 883005746 dimer interface [polypeptide binding]; other site 883005747 conserved gate region; other site 883005748 putative PBP binding loops; other site 883005749 ABC-ATPase subunit interface; other site 883005750 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 883005751 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 883005752 Walker A/P-loop; other site 883005753 ATP binding site [chemical binding]; other site 883005754 Q-loop/lid; other site 883005755 ABC transporter signature motif; other site 883005756 Walker B; other site 883005757 D-loop; other site 883005758 H-loop/switch region; other site 883005759 TOBE domain; Region: TOBE_2; cl01440 883005760 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 883005761 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 883005762 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 883005763 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 883005764 NAD(P) binding site [chemical binding]; other site 883005765 shikimate binding site; other site 883005766 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 883005767 ATP phosphoribosyltransferase; Region: HisG; cl15266 883005768 HisG, C-terminal domain; Region: HisG_C; cl06867 883005769 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 883005770 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 883005771 homodimer interaction site [polypeptide binding]; other site 883005772 cofactor binding site; other site 883005773 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 883005774 intersubunit interface [polypeptide binding]; other site 883005775 active site 883005776 Zn2+ binding site [ion binding]; other site 883005777 thiamine monophosphate kinase; Provisional; Region: PRK05731 883005778 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 883005779 ATP binding site [chemical binding]; other site 883005780 dimerization interface [polypeptide binding]; other site 883005781 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 883005782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005783 Sulfatase; Region: Sulfatase; cl10460 883005784 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 883005785 active site 1 [active] 883005786 dimer interface [polypeptide binding]; other site 883005787 hexamer interface [polypeptide binding]; other site 883005788 active site 2 [active] 883005789 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 883005790 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883005791 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 883005792 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 883005793 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 883005794 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 883005795 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 883005796 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 883005797 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 883005798 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 883005799 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 883005800 Gram-negative bacterial tonB protein; Region: TonB; cl10048 883005801 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 883005802 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 883005803 Ferritin-like domain; Region: Ferritin; pfam00210 883005804 heme binding site [chemical binding]; other site 883005805 ferroxidase pore; other site 883005806 ferroxidase diiron center [ion binding]; other site 883005807 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883005808 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883005809 putative active site [active] 883005810 heme pocket [chemical binding]; other site 883005811 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 883005812 dimer interface [polypeptide binding]; other site 883005813 phosphorylation site [posttranslational modification] 883005814 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005815 ATP binding site [chemical binding]; other site 883005816 Mg2+ binding site [ion binding]; other site 883005817 G-X-G motif; other site 883005818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005819 active site 883005820 phosphorylation site [posttranslational modification] 883005821 intermolecular recognition site; other site 883005822 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 883005823 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 883005824 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883005825 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883005826 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883005827 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 883005828 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 883005829 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 883005830 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883005831 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883005832 Response regulator receiver domain; Region: Response_reg; pfam00072 883005833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005834 active site 883005835 phosphorylation site [posttranslational modification] 883005836 intermolecular recognition site; other site 883005837 dimerization interface [polypeptide binding]; other site 883005838 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883005839 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 883005840 dimer interface [polypeptide binding]; other site 883005841 phosphorylation site [posttranslational modification] 883005842 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005843 ATP binding site [chemical binding]; other site 883005844 Mg2+ binding site [ion binding]; other site 883005845 G-X-G motif; other site 883005846 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883005847 pyruvate phosphate dikinase; Provisional; Region: PRK05878 883005848 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883005849 Response regulator receiver domain; Region: Response_reg; pfam00072 883005850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005851 active site 883005852 phosphorylation site [posttranslational modification] 883005853 intermolecular recognition site; other site 883005854 dimerization interface [polypeptide binding]; other site 883005855 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 883005856 phosphorylation site [posttranslational modification] 883005857 dimer interface [polypeptide binding]; other site 883005858 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883005859 ATP binding site [chemical binding]; other site 883005860 Mg2+ binding site [ion binding]; other site 883005861 G-X-G motif; other site 883005862 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883005863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005864 active site 883005865 phosphorylation site [posttranslational modification] 883005866 intermolecular recognition site; other site 883005867 dimerization interface [polypeptide binding]; other site 883005868 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 883005869 Walker A motif; other site 883005870 ATP binding site [chemical binding]; other site 883005871 Walker B motif; other site 883005872 arginine finger; other site 883005873 Helix-turn-helix domains; Region: HTH; cl00088 883005874 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 883005875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883005876 DNA-binding site [nucleotide binding]; DNA binding site 883005877 UTRA domain; Region: UTRA; cl01230 883005878 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 883005879 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883005880 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883005881 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 883005882 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 883005883 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 883005884 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 883005885 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 883005886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 883005887 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883005888 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 883005889 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 883005890 SAF domain; Region: SAF; cl00555 883005891 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 883005892 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 883005893 SAF domain; Region: SAF; cl00555 883005894 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 883005895 Response regulator receiver domain; Region: Response_reg; pfam00072 883005896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005897 active site 883005898 phosphorylation site [posttranslational modification] 883005899 intermolecular recognition site; other site 883005900 dimerization interface [polypeptide binding]; other site 883005901 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 883005902 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 883005903 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 883005904 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 883005905 DNA binding residues [nucleotide binding] 883005906 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 883005907 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 883005908 P-loop; other site 883005909 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 883005910 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 883005911 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 883005912 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 883005913 FHIPEP family; Region: FHIPEP; pfam00771 883005914 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 883005915 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 883005916 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 883005917 high affinity sulphate transporter 1; Region: sulP; TIGR00815 883005918 Permease family; Region: Xan_ur_permease; cl00967 883005919 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 883005920 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 883005921 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 883005922 FMN binding site [chemical binding]; other site 883005923 active site 883005924 catalytic residues [active] 883005925 substrate binding site [chemical binding]; other site 883005926 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 883005927 LytB protein; Region: LYTB; cl00507 883005928 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 883005929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883005930 active site 883005931 phosphorylation site [posttranslational modification] 883005932 intermolecular recognition site; other site 883005933 dimerization interface [polypeptide binding]; other site 883005934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883005935 DNA-binding site [nucleotide binding]; DNA binding site 883005936 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 883005937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883005938 homodimer interface [polypeptide binding]; other site 883005939 catalytic residue [active] 883005940 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 883005941 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; cl09940 883005942 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 883005943 active site 883005944 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; cl12011 883005945 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 cysteine...; Region: CysQ; cd01638 883005946 active site 883005947 NlpC/P60 family; Region: NLPC_P60; cl11438 883005948 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 883005949 IHF - DNA interface [nucleotide binding]; other site 883005950 IHF dimer interface [polypeptide binding]; other site 883005951 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883005952 DNA binding residues [nucleotide binding] 883005953 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 883005954 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 883005955 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 883005956 active site 883005957 dimer interface [polypeptide binding]; other site 883005958 effector binding site; other site 883005959 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 883005960 TSCPD domain; Region: TSCPD; cl14834 883005961 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 883005962 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883005963 Walker A/P-loop; other site 883005964 ATP binding site [chemical binding]; other site 883005965 Q-loop/lid; other site 883005966 ABC transporter signature motif; other site 883005967 Walker B; other site 883005968 D-loop; other site 883005969 H-loop/switch region; other site 883005970 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 883005971 Dehydratase family; Region: ILVD_EDD; cl00340 883005972 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 883005973 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 883005974 THF binding site; other site 883005975 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 883005976 substrate binding site [chemical binding]; other site 883005977 THF binding site; other site 883005978 zinc-binding site [ion binding]; other site 883005979 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 883005980 S-adenosylmethionine binding site [chemical binding]; other site 883005981 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 883005982 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 ATP-dependent...; Region: HisRS-like_core; cd00773 883005983 dimer interface [polypeptide binding]; other site 883005984 motif 1; other site 883005985 active site 883005986 motif 2; other site 883005987 motif 3; other site 883005988 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 883005989 anticodon binding site; other site 883005990 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 883005991 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 883005992 dimer interface [polypeptide binding]; other site 883005993 anticodon binding site; other site 883005994 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 the...; Region: AspRS_core; cd00777 883005995 homodimer interface [polypeptide binding]; other site 883005996 motif 1; other site 883005997 active site 883005998 motif 2; other site 883005999 GAD domain; Region: GAD; pfam02938 883006000 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 the...; Region: AspRS_core; cd00777 883006001 motif 3; other site 883006002 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 883006003 active site 883006004 catalytic residues [active] 883006005 metal binding site [ion binding]; metal-binding site 883006006 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 883006007 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 883006008 putative active site [active] 883006009 substrate binding site [chemical binding]; other site 883006010 putative cosubstrate binding site; other site 883006011 catalytic site [active] 883006012 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 883006013 substrate binding site [chemical binding]; other site 883006014 Protein of unknown function DUF116; Region: DUF116; cl00800 883006015 16S rRNA methyltransferase B; Provisional; Region: PRK14902 883006016 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 883006017 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; cl12011 883006018 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 883006019 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 883006020 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 883006021 putative ribose interaction site [chemical binding]; other site 883006022 putative ADP binding site [chemical binding]; other site 883006023 ParB-like partition proteins; Region: parB_part; TIGR00180 883006024 ParB-like nuclease domain; Region: ParBc; cl02129 883006025 Helix-turn-helix domains; Region: HTH; cl00088 883006026 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 883006027 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 883006028 P-loop; other site 883006029 Magnesium ion binding site [ion binding]; other site 883006030 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 883006031 Magnesium ion binding site [ion binding]; other site 883006032 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883006033 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 883006034 putative NAD(P) binding site [chemical binding]; other site 883006035 active site 883006036 putative substrate binding site [chemical binding]; other site 883006037 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 883006038 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 883006039 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 883006040 Flavoprotein; Region: Flavoprotein; cl08021 883006041 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 883006042 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 883006043 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 883006044 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883006045 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883006046 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 883006047 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 883006048 dimer interface [polypeptide binding]; other site 883006049 PYR/PP interface [polypeptide binding]; other site 883006050 TPP binding site [chemical binding]; other site 883006051 substrate binding site [chemical binding]; other site 883006052 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 883006053 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 883006054 TPP-binding site [chemical binding]; other site 883006055 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 883006056 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 883006057 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 883006058 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 883006059 putative active site [active] 883006060 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 883006061 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 883006062 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 883006063 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883006064 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883006065 Walker A/P-loop; other site 883006066 ATP binding site [chemical binding]; other site 883006067 Q-loop/lid; other site 883006068 ABC transporter signature motif; other site 883006069 Walker B; other site 883006070 D-loop; other site 883006071 H-loop/switch region; other site 883006072 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883006073 FtsX-like permease family; Region: FtsX; pfam02687 883006074 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 883006075 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 883006076 putative deacylase active site [active] 883006077 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 883006078 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883006079 Peptidase family M48; Region: Peptidase_M48; cl12018 883006080 DNA topoisomerase I; Validated; Region: PRK06599 883006081 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 883006082 active site 883006083 interdomain interaction site; other site 883006084 putative metal-binding site [ion binding]; other site 883006085 nucleotide binding site [chemical binding]; other site 883006086 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 883006087 domain I; other site 883006088 DNA binding groove [nucleotide binding] 883006089 phosphate binding site [ion binding]; other site 883006090 domain II; other site 883006091 domain III; other site 883006092 nucleotide binding site [chemical binding]; other site 883006093 catalytic site [active] 883006094 domain IV; other site 883006095 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 883006096 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 883006097 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 883006098 DNA topoisomerase I; Validated; Region: PRK06599 883006099 Nuclear pore component; Region: Nup88; pfam10168 883006100 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 883006101 active site 883006102 fumarate hydratase; Reviewed; Region: fumC; PRK00485 883006103 Class II fumarases; Region: Fumarase_classII; cd01362 883006104 active site 883006105 tetramer interface [polypeptide binding]; other site 883006106 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 883006107 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 883006108 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883006109 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 883006110 catalytic residues [active] 883006111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883006112 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 883006113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883006114 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 883006115 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 883006116 substrate binding site [chemical binding]; other site 883006117 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 883006118 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 883006119 putative NAD(P) binding site [chemical binding]; other site 883006120 putative active site [active] 883006121 Peptidase family M23; Region: Peptidase_M23; pfam01551 883006122 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 883006123 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 883006124 Walker A motif; other site 883006125 ATP binding site [chemical binding]; other site 883006126 Walker B motif; other site 883006127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883006128 arginine finger; other site 883006129 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 883006130 DnaA box-binding interface [nucleotide binding]; other site 883006131 DNA polymerase III subunit beta; Provisional; Region: PRK14947 883006132 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 883006133 putative DNA binding surface [nucleotide binding]; other site 883006134 dimer interface [polypeptide binding]; other site 883006135 beta-clamp/clamp loader binding surface; other site 883006136 beta-clamp/translesion DNA polymerase binding surface; other site 883006137 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 883006138 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006139 ATP binding site [chemical binding]; other site 883006140 Mg2+ binding site [ion binding]; other site 883006141 G-X-G motif; other site 883006142 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 883006143 anchoring element; other site 883006144 dimer interface [polypeptide binding]; other site 883006145 ATP binding site [chemical binding]; other site 883006146 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 883006147 active site 883006148 putative metal-binding site [ion binding]; other site 883006149 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 883006150 DNA gyrase subunit A; Validated; Region: PRK05560 883006151 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 in DNA...; Region: TOP4c; cd00187 883006152 CAP-like domain; other site 883006153 active site 883006154 primary dimer interface [polypeptide binding]; other site 883006155 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006156 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006157 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006158 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006159 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006160 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 883006161 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883006162 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 883006163 Ligand Binding Site [chemical binding]; other site 883006164 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 883006165 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 883006166 putative dimer interface [polypeptide binding]; other site 883006167 putative anticodon binding site; other site 883006168 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 883006169 homodimer interface [polypeptide binding]; other site 883006170 motif 1; other site 883006171 motif 2; other site 883006172 active site 883006173 motif 3; other site 883006174 Helix-turn-helix domains; Region: HTH; cl00088 883006175 Rubrerythrin [Energy production and conversion]; Region: COG1592 883006176 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 883006177 binuclear metal center [ion binding]; other site 883006178 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 883006179 iron binding site [ion binding]; other site 883006180 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 883006181 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 883006182 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883006183 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883006184 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 883006185 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 883006186 phosphorylation site [posttranslational modification] 883006187 dimer interface [polypeptide binding]; other site 883006188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006189 ATP binding site [chemical binding]; other site 883006190 Mg2+ binding site [ion binding]; other site 883006191 G-X-G motif; other site 883006192 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006194 active site 883006195 phosphorylation site [posttranslational modification] 883006196 intermolecular recognition site; other site 883006197 dimerization interface [polypeptide binding]; other site 883006198 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 883006199 Walker A motif; other site 883006200 ATP binding site [chemical binding]; other site 883006201 Walker B motif; other site 883006202 arginine finger; other site 883006203 Helix-turn-helix domains; Region: HTH; cl00088 883006204 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883006205 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 883006206 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883006207 putative substrate translocation pore; other site 883006208 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 883006209 glutamine synthetase, type I; Region: GlnA; TIGR00653 883006210 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 883006211 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 883006212 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 883006213 enterobactin exporter EntS; Provisional; Region: PRK10489 883006214 putative substrate translocation pore; other site 883006215 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 883006216 Ligand Binding Site [chemical binding]; other site 883006217 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 883006218 Ligand Binding Site [chemical binding]; other site 883006219 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883006220 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 883006221 Response regulator receiver domain; Region: Response_reg; pfam00072 883006222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006223 active site 883006224 phosphorylation site [posttranslational modification] 883006225 intermolecular recognition site; other site 883006226 dimerization interface [polypeptide binding]; other site 883006227 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 883006228 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 883006229 Walker A motif; other site 883006230 ATP binding site [chemical binding]; other site 883006231 Walker B motif; other site 883006232 arginine finger; other site 883006233 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883006234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883006235 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 883006236 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 883006237 dimer interface [polypeptide binding]; other site 883006238 phosphorylation site [posttranslational modification] 883006239 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006240 ATP binding site [chemical binding]; other site 883006241 G-X-G motif; other site 883006242 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006244 active site 883006245 phosphorylation site [posttranslational modification] 883006246 intermolecular recognition site; other site 883006247 dimerization interface [polypeptide binding]; other site 883006248 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 883006249 Walker A motif; other site 883006250 ATP binding site [chemical binding]; other site 883006251 Walker B motif; other site 883006252 arginine finger; other site 883006253 Helix-turn-helix domains; Region: HTH; cl00088 883006254 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 883006255 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 883006256 Walker A/P-loop; other site 883006257 ATP binding site [chemical binding]; other site 883006258 Q-loop/lid; other site 883006259 ABC transporter signature motif; other site 883006260 Walker B; other site 883006261 D-loop; other site 883006262 H-loop/switch region; other site 883006263 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883006264 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 883006265 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; cl12011 883006266 Fusaric acid resistance protein family; Region: FUSC; pfam04632 883006267 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 883006268 TPR motif; other site 883006269 binding surface 883006270 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 883006271 binding surface 883006272 TPR motif; other site 883006273 Flagellin N-methylase; Region: FliB; cl00497 883006274 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883006275 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 883006276 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 883006277 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 883006278 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 883006279 protein binding site [polypeptide binding]; other site 883006280 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 883006281 protein binding site [polypeptide binding]; other site 883006282 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 883006283 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 883006284 putative dimer interface [polypeptide binding]; other site 883006285 active site pocket [active] 883006286 putative cataytic base [active] 883006287 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 883006288 Helix-turn-helix domains; Region: HTH; cl00088 883006289 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 883006290 putative dimerization interface [polypeptide binding]; other site 883006291 LysE type translocator; Region: LysE; cl00565 883006292 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 883006293 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 883006294 ATP binding site [chemical binding]; other site 883006295 Mg++ binding site [ion binding]; other site 883006296 motif III; other site 883006297 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 883006298 nucleotide binding region [chemical binding]; other site 883006299 ATP-binding site [chemical binding]; other site 883006300 DbpA RNA binding domain; Region: DbpA; pfam03880 883006301 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 883006302 GIY-YIG motif/motif A; other site 883006303 putative active site [active] 883006304 putative metal binding site [ion binding]; other site 883006305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883006306 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 883006307 Flavoprotein; Region: Flavoprotein; cl08021 883006308 glycolate transporter; Provisional; Region: PRK09695 883006309 L-lactate permease; Region: Lactate_perm; cl00701 883006310 LysE type translocator; Region: LysE; cl00565 883006311 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 883006312 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 883006313 rRNA binding site [nucleotide binding]; other site 883006314 predicted 30S ribosome binding site; other site 883006315 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 883006316 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 883006317 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883006318 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883006319 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 883006320 dimer interface [polypeptide binding]; other site 883006321 phosphorylation site [posttranslational modification] 883006322 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006323 ATP binding site [chemical binding]; other site 883006324 Mg2+ binding site [ion binding]; other site 883006325 G-X-G motif; other site 883006326 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883006327 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 883006328 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 883006329 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 883006330 Helix-turn-helix domains; Region: HTH; cl00088 883006331 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 883006332 dimerization interface [polypeptide binding]; other site 883006333 substrate binding pocket [chemical binding]; other site 883006334 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883006335 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 883006336 Peptidase family U32; Region: Peptidase_U32; cl03113 883006337 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 883006338 Peptidase family U32; Region: Peptidase_U32; cl03113 883006339 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 883006340 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 883006341 FAD binding pocket [chemical binding]; other site 883006342 FAD binding motif [chemical binding]; other site 883006343 phosphate binding motif [ion binding]; other site 883006344 beta-alpha-beta structure motif; other site 883006345 NAD binding pocket [chemical binding]; other site 883006346 Iron coordination center [ion binding]; other site 883006347 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 883006348 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 883006349 heterodimer interface [polypeptide binding]; other site 883006350 active site 883006351 FMN binding site [chemical binding]; other site 883006352 homodimer interface [polypeptide binding]; other site 883006353 substrate binding site [chemical binding]; other site 883006354 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 883006355 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 883006356 Proline dehydrogenase; Region: Pro_dh; cl03282 883006357 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 883006358 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 883006359 Glutamate binding site [chemical binding]; other site 883006360 homodimer interface [polypeptide binding]; other site 883006361 NAD binding site [chemical binding]; other site 883006362 catalytic residues [active] 883006363 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 883006364 dimer interface [polypeptide binding]; other site 883006365 sensor protein ZraS; Provisional; Region: PRK10364 883006366 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 883006367 dimer interface [polypeptide binding]; other site 883006368 phosphorylation site [posttranslational modification] 883006369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006370 ATP binding site [chemical binding]; other site 883006371 Mg2+ binding site [ion binding]; other site 883006372 G-X-G motif; other site 883006373 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 883006374 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006375 active site 883006376 phosphorylation site [posttranslational modification] 883006377 intermolecular recognition site; other site 883006378 dimerization interface [polypeptide binding]; other site 883006379 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 883006380 Walker A motif; other site 883006381 ATP binding site [chemical binding]; other site 883006382 Walker B motif; other site 883006383 arginine finger; other site 883006384 Helix-turn-helix domains; Region: HTH; cl00088 883006385 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 883006386 active site 883006387 LysE type translocator; Region: LysE; cl00565 883006388 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 883006389 CoenzymeA binding site [chemical binding]; other site 883006390 subunit interaction site [polypeptide binding]; other site 883006391 PHB binding site; other site 883006392 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 883006393 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 883006394 Walker A motif; other site 883006395 ATP binding site [chemical binding]; other site 883006396 Walker B motif; other site 883006397 arginine finger; other site 883006398 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 883006399 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 883006400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883006401 ABC-2 type transporter; Region: ABC2_membrane; cl11417 883006402 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 883006403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883006404 Walker A/P-loop; other site 883006405 ATP binding site [chemical binding]; other site 883006406 Q-loop/lid; other site 883006407 ABC transporter signature motif; other site 883006408 Walker B; other site 883006409 D-loop; other site 883006410 H-loop/switch region; other site 883006411 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 883006412 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 883006413 Walker A/P-loop; other site 883006414 ATP binding site [chemical binding]; other site 883006415 Q-loop/lid; other site 883006416 ABC transporter signature motif; other site 883006417 Walker B; other site 883006418 D-loop; other site 883006419 H-loop/switch region; other site 883006420 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 883006421 ABC-2 type transporter; Region: ABC2_membrane; cl11417 883006422 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 883006423 Helix-turn-helix domains; Region: HTH; cl00088 883006424 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 883006425 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883006426 Transcriptional regulators [Transcription]; Region: MarR; COG1846 883006427 Helix-turn-helix domains; Region: HTH; cl00088 883006428 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 883006429 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 883006430 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 883006431 Helix-turn-helix domains; Region: HTH; cl00088 883006432 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 883006433 Uncharacterised ArCR, COG2043; Region: DUF169; cl00894 883006434 Helix-turn-helix domains; Region: HTH; cl00088 883006435 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883006436 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 883006437 putative acyl-acceptor binding pocket; other site 883006438 Protein of unknown function (DUF523); Region: DUF523; cl00733 883006439 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883006440 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 883006441 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 883006442 AzlC protein; Region: AzlC; cl00570 883006443 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 883006444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883006445 DNA-binding site [nucleotide binding]; DNA binding site 883006446 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 883006447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006448 homodimer interface [polypeptide binding]; other site 883006449 catalytic residue [active] 883006450 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 883006451 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 883006452 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 883006453 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 883006454 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 883006455 dimer interface [polypeptide binding]; other site 883006456 putative tRNA-binding site [nucleotide binding]; other site 883006457 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 883006458 S-adenosylmethionine binding site [chemical binding]; other site 883006459 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 883006460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883006461 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883006462 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 883006463 putative dimer interface [polypeptide binding]; other site 883006464 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883006465 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 883006466 dimerization interface [polypeptide binding]; other site 883006467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883006468 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883006469 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; cl09155 883006470 active site 883006471 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 883006472 potential catalytic triad [active] 883006473 conserved cys residue [active] 883006474 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 883006475 active site 883006476 catalytic residues [active] 883006477 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883006478 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883006479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006480 active site 883006481 phosphorylation site [posttranslational modification] 883006482 intermolecular recognition site; other site 883006483 dimerization interface [polypeptide binding]; other site 883006484 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883006485 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883006486 putative active site [active] 883006487 heme pocket [chemical binding]; other site 883006488 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 883006489 dimer interface [polypeptide binding]; other site 883006490 phosphorylation site [posttranslational modification] 883006491 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006492 ATP binding site [chemical binding]; other site 883006493 Mg2+ binding site [ion binding]; other site 883006494 G-X-G motif; other site 883006495 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 883006496 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883006497 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883006498 Uncharacterised ArCR, COG2043; Region: DUF169; cl00894 883006499 Predicted permease; Region: DUF318; cl00487 883006500 Predicted permease; Region: DUF318; cl00487 883006501 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 883006502 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 883006503 FAD binding domain; Region: FAD_binding_4; pfam01565 883006504 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883006505 Protein of unknown function (DUF805); Region: DUF805; cl01224 883006506 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 883006507 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 883006508 ATP binding site [chemical binding]; other site 883006509 putative Mg++ binding site [ion binding]; other site 883006510 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 883006511 nucleotide binding region [chemical binding]; other site 883006512 ATP-binding site [chemical binding]; other site 883006513 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 883006514 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 883006515 active site 883006516 substrate binding site [chemical binding]; other site 883006517 catalytic site [active] 883006518 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883006519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006520 active site 883006521 phosphorylation site [posttranslational modification] 883006522 intermolecular recognition site; other site 883006523 dimerization interface [polypeptide binding]; other site 883006524 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 883006525 Walker A motif; other site 883006526 ATP binding site [chemical binding]; other site 883006527 Walker B motif; other site 883006528 arginine finger; other site 883006529 sensor protein ZraS; Provisional; Region: PRK10364 883006530 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 883006531 dimer interface [polypeptide binding]; other site 883006532 phosphorylation site [posttranslational modification] 883006533 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006534 ATP binding site [chemical binding]; other site 883006535 Mg2+ binding site [ion binding]; other site 883006536 G-X-G motif; other site 883006537 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 883006538 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 883006539 active site 883006540 dimer interface [polypeptide binding]; other site 883006541 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 883006542 dimer interface [polypeptide binding]; other site 883006543 active site 883006544 aspartate aminotransferase; Provisional; Region: PRK05764 883006545 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 883006546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006547 homodimer interface [polypeptide binding]; other site 883006548 catalytic residue [active] 883006549 Sugar fermentation stimulation protein; Region: SfsA; cl00647 883006550 GTPase Era; Reviewed; Region: era; PRK00089 883006551 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 883006552 G1 box; other site 883006553 GTP/Mg2+ binding site [chemical binding]; other site 883006554 Switch I region; other site 883006555 G2 box; other site 883006556 Switch II region; other site 883006557 G3 box; other site 883006558 G4 box; other site 883006559 G5 box; other site 883006560 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 883006561 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 883006562 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 883006563 catalytic residue [active] 883006564 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883006565 flagellar motor protein MotP; Reviewed; Region: PRK06926 883006566 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883006567 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883006568 ligand binding site [chemical binding]; other site 883006569 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883006570 ligand binding site [chemical binding]; other site 883006571 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 883006572 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 883006573 flagellar motor switch protein; Validated; Region: fliN; PRK05698 883006574 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 883006575 FliP family; Region: FliP; cl00593 883006576 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 883006577 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 883006578 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 883006579 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 883006580 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 catalyze...; Region: LT_GEWL; cd00254 883006581 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883006582 catalytic residue [active] 883006583 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 883006584 putative peptidoglycan binding site; other site 883006585 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 883006586 putative peptidoglycan binding site; other site 883006587 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 883006588 putative peptidoglycan binding site; other site 883006589 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 883006590 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 883006591 Catalytic site; other site 883006592 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 883006593 active site 883006594 catalytic triad [active] 883006595 oxyanion hole [active] 883006596 switch loop; other site 883006597 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 883006598 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883006599 Walker A/P-loop; other site 883006600 ATP binding site [chemical binding]; other site 883006601 Q-loop/lid; other site 883006602 ABC transporter signature motif; other site 883006603 Walker B; other site 883006604 D-loop; other site 883006605 H-loop/switch region; other site 883006606 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 883006607 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 883006608 FtsX-like permease family; Region: FtsX; pfam02687 883006609 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 883006610 seryl-tRNA synthetase; Provisional; Region: PRK05431 883006611 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 883006612 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 bound...; Region: SerRS_core; cd00770 883006613 dimer interface [polypeptide binding]; other site 883006614 active site 883006615 motif 1; other site 883006616 motif 2; other site 883006617 motif 3; other site 883006618 PilZ domain; Region: PilZ; cl01260 883006619 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 883006620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 883006621 SEC-C motif; Region: SEC-C; pfam02810 883006622 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 883006623 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 883006624 active site 883006625 Domain of unknown function (DUF309); Region: DUF309; cl00667 883006626 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 883006627 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 883006628 ACS interaction site; other site 883006629 CODH interaction site; other site 883006630 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 883006631 cubane metal cluster (B-cluster) [ion binding]; other site 883006632 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 883006633 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 883006634 ligand binding site [chemical binding]; other site 883006635 flexible hinge region; other site 883006636 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 883006637 non-specific DNA interactions [nucleotide binding]; other site 883006638 DNA binding site [nucleotide binding] 883006639 sequence specific DNA binding site [nucleotide binding]; other site 883006640 putative cAMP binding site [chemical binding]; other site 883006641 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 883006642 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 883006643 Isochorismatase family; Region: Isochorismatase; pfam00857 883006644 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 883006645 catalytic triad [active] 883006646 conserved cis-peptide bond; other site 883006647 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 883006648 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 883006649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006650 catalytic residue [active] 883006651 Tir chaperone protein (CesT); Region: CesT; cl08444 883006652 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 883006653 Permease family; Region: Xan_ur_permease; cl00967 883006654 HDOD domain; Region: HDOD; pfam08668 883006655 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 883006656 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883006657 Stress responsive A/B Barrel Domain; Region: Dabb; cl06768 883006658 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 883006659 S-adenosylmethionine binding site [chemical binding]; other site 883006660 Helix-turn-helix domains; Region: HTH; cl00088 883006661 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 883006662 dimerization interface [polypeptide binding]; other site 883006663 Haemolysin-III related; Region: HlyIII; cl03831 883006664 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 883006665 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 883006666 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 883006667 P loop; other site 883006668 GTP binding site [chemical binding]; other site 883006669 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883006670 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 883006671 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883006672 PAS fold; Region: PAS_3; pfam08447 883006673 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 883006674 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883006675 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883006676 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 883006677 dimer interface [polypeptide binding]; other site 883006678 phosphorylation site [posttranslational modification] 883006679 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006680 ATP binding site [chemical binding]; other site 883006681 Mg2+ binding site [ion binding]; other site 883006682 G-X-G motif; other site 883006683 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 883006684 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 883006685 DEAD-like helicases superfamily; Region: DEXDc; smart00487 883006686 ATP binding site [chemical binding]; other site 883006687 Mg++ binding site [ion binding]; other site 883006688 motif III; other site 883006689 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 883006690 nucleotide binding region [chemical binding]; other site 883006691 ATP-binding site [chemical binding]; other site 883006692 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 883006693 Precorrin-8X methylmutase; Region: CbiC; pfam02570 883006694 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 883006695 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 883006696 catalytic triad [active] 883006697 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl11561 883006698 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883006699 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 883006700 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883006701 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883006702 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883006703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883006704 Walker A/P-loop; other site 883006705 ATP binding site [chemical binding]; other site 883006706 Q-loop/lid; other site 883006707 ABC transporter signature motif; other site 883006708 Walker B; other site 883006709 H-loop/switch region; other site 883006710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883006711 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 883006712 GTP-binding protein Der; Reviewed; Region: PRK00093 883006713 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 883006714 G1 box; other site 883006715 GTP/Mg2+ binding site [chemical binding]; other site 883006716 Switch I region; other site 883006717 G2 box; other site 883006718 Switch II region; other site 883006719 G3 box; other site 883006720 G4 box; other site 883006721 G5 box; other site 883006722 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 883006723 G1 box; other site 883006724 GTP/Mg2+ binding site [chemical binding]; other site 883006725 Switch I region; other site 883006726 G2 box; other site 883006727 G3 box; other site 883006728 Switch II region; other site 883006729 G4 box; other site 883006730 G5 box; other site 883006731 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 883006732 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 883006733 Helix-turn-helix domains; Region: HTH; cl00088 883006734 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 883006735 active site 883006736 Zn binding site [ion binding]; other site 883006737 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 883006738 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 883006739 homodimer interface [polypeptide binding]; other site 883006740 substrate-cofactor binding pocket; other site 883006741 Aminotransferase class IV; Region: Aminotran_4; pfam01063 883006742 catalytic residue [active] 883006743 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 883006744 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 883006745 Walker A motif; other site 883006746 ATP binding site [chemical binding]; other site 883006747 Walker B motif; other site 883006748 arginine finger; other site 883006749 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 883006750 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 883006751 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 883006752 recombination protein RecR; Reviewed; Region: recR; PRK00076 883006753 RecR protein; Region: RecR; pfam02132 883006754 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 883006755 putative active site [active] 883006756 putative metal-binding site [ion binding]; other site 883006757 tetramer interface [polypeptide binding]; other site 883006758 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 883006759 dimerization interface [polypeptide binding]; other site 883006760 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883006761 PAS domain S-box; Region: sensory_box; TIGR00229 883006762 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 883006763 dimer interface [polypeptide binding]; other site 883006764 phosphorylation site [posttranslational modification] 883006765 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006766 ATP binding site [chemical binding]; other site 883006767 Mg2+ binding site [ion binding]; other site 883006768 G-X-G motif; other site 883006769 Response regulator receiver domain; Region: Response_reg; pfam00072 883006770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006771 active site 883006772 phosphorylation site [posttranslational modification] 883006773 intermolecular recognition site; other site 883006774 dimerization interface [polypeptide binding]; other site 883006775 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 883006776 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 883006777 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 883006778 Hydrogenase formation hypA family; Region: HypD; cl12072 883006779 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 883006780 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 883006781 dimerization interface [polypeptide binding]; other site 883006782 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 883006783 ATP binding site [chemical binding]; other site 883006784 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 883006785 putative ADP-binding pocket [chemical binding]; other site 883006786 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 883006787 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 883006788 NAD binding site [chemical binding]; other site 883006789 substrate binding site [chemical binding]; other site 883006790 homodimer interface [polypeptide binding]; other site 883006791 active site 883006792 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 883006793 dimerization interface [polypeptide binding]; other site 883006794 putative DNA binding site [nucleotide binding]; other site 883006795 putative Zn2+ binding site [ion binding]; other site 883006796 Predicted permease; Region: DUF318; cl00487 883006797 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 883006798 binding surface 883006799 TPR motif; other site 883006800 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 883006801 binding surface 883006802 TPR motif; other site 883006803 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 883006804 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883006805 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 883006806 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883006807 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 883006808 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 883006809 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 883006810 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 883006811 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 883006812 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 883006813 MgtE intracellular N domain; Region: MgtE_N; cl15244 883006814 FliG C-terminal domain; Region: FliG_C; pfam01706 883006815 Flagellar assembly protein FliH; Region: FliH; pfam02108 883006816 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 883006817 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 883006818 Walker A motif/ATP binding site; other site 883006819 Walker B motif; other site 883006820 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 883006821 Peptidase family M23; Region: Peptidase_M23; pfam01551 883006822 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 883006823 Ligand Binding Site [chemical binding]; other site 883006824 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 883006825 chaperone protein DnaJ; Provisional; Region: PRK14301 883006826 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 883006827 HSP70 interaction site [polypeptide binding]; other site 883006828 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 883006829 substrate binding site [polypeptide binding]; other site 883006830 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 883006831 Zn binding sites [ion binding]; other site 883006832 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 883006833 dimer interface [polypeptide binding]; other site 883006834 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 883006835 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 883006836 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 883006837 dimerization interface [polypeptide binding]; other site 883006838 PAS domain S-box; Region: sensory_box; TIGR00229 883006839 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883006840 putative active site [active] 883006841 heme pocket [chemical binding]; other site 883006842 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883006843 metal binding site [ion binding]; metal-binding site 883006844 active site 883006845 I-site; other site 883006846 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 883006847 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 883006848 trimer interface [polypeptide binding]; other site 883006849 dimer interface [polypeptide binding]; other site 883006850 putative active site [active] 883006851 hypothetical protein; Validated; Region: PRK06201 883006852 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 883006853 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 883006854 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 883006855 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 883006856 substrate binding site [chemical binding]; other site 883006857 glutamase interaction surface [polypeptide binding]; other site 883006858 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 883006859 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 883006860 putative active site [active] 883006861 oxyanion strand; other site 883006862 catalytic triad [active] 883006863 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 883006864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883006865 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883006866 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 883006867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883006868 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 883006869 IMP binding site; other site 883006870 dimer interface [polypeptide binding]; other site 883006871 interdomain contacts; other site 883006872 partial ornithine binding site; other site 883006873 amidophosphoribosyltransferase; Provisional; Region: PRK09123 883006874 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 883006875 active site 883006876 tetramer interface [polypeptide binding]; other site 883006877 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883006878 KpsF/GutQ family protein; Region: kpsF; TIGR00393 883006879 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 883006880 putative active site [active] 883006881 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 883006882 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 883006883 Predicted GTPase [General function prediction only]; Region: COG2403 883006884 Uncharacterized conserved protein [Function unknown]; Region: COG4717 883006885 Uncharacterized conserved protein [Function unknown]; Region: COG4717 883006886 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 883006887 active site 883006888 metal binding site [ion binding]; metal-binding site 883006889 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 883006890 active site 883006891 DNA polymerase IV; Validated; Region: PRK02406 883006892 DNA binding site [nucleotide binding] 883006893 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 883006894 homodimer interface [polypeptide binding]; other site 883006895 substrate-cofactor binding pocket; other site 883006896 Aminotransferase class IV; Region: Aminotran_4; pfam01063 883006897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883006898 catalytic residue [active] 883006899 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 883006900 chorismate binding enzyme; Region: Chorismate_bind; cl10555 883006901 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883006902 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883006903 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 883006904 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 883006905 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 883006906 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 883006907 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 883006908 active site 883006909 metal binding site [ion binding]; metal-binding site 883006910 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 883006911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883006912 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 883006913 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 883006914 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 883006915 putative catalytic cysteine [active] 883006916 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 883006917 putative active site [active] 883006918 metal binding site [ion binding]; metal-binding site 883006919 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883006920 PAS fold; Region: PAS_3; pfam08447 883006921 putative active site [active] 883006922 heme pocket [chemical binding]; other site 883006923 PAS fold; Region: PAS; pfam00989 883006924 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883006925 putative active site [active] 883006926 heme pocket [chemical binding]; other site 883006927 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883006928 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 883006929 dimer interface [polypeptide binding]; other site 883006930 phosphorylation site [posttranslational modification] 883006931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006932 ATP binding site [chemical binding]; other site 883006933 Mg2+ binding site [ion binding]; other site 883006934 G-X-G motif; other site 883006935 Response regulator receiver domain; Region: Response_reg; pfam00072 883006936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006937 active site 883006938 phosphorylation site [posttranslational modification] 883006939 intermolecular recognition site; other site 883006940 dimerization interface [polypeptide binding]; other site 883006941 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 883006942 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883006943 substrate binding pocket [chemical binding]; other site 883006944 membrane-bound complex binding site; other site 883006945 hinge residues; other site 883006946 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883006947 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 883006948 TPR motif; other site 883006949 binding surface 883006950 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 883006951 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 883006952 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883006953 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 883006954 active site 883006955 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 883006956 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 883006957 Ligand Binding Site [chemical binding]; other site 883006958 TIGR00269 family protein; Region: TIGR00269 883006959 Ubiquitin-like proteins; Region: UBQ; cl00155 883006960 Response regulator receiver domain; Region: Response_reg; pfam00072 883006961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006962 active site 883006963 phosphorylation site [posttranslational modification] 883006964 intermolecular recognition site; other site 883006965 dimerization interface [polypeptide binding]; other site 883006966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883006967 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 883006968 dimer interface [polypeptide binding]; other site 883006969 phosphorylation site [posttranslational modification] 883006970 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883006971 ATP binding site [chemical binding]; other site 883006972 Mg2+ binding site [ion binding]; other site 883006973 G-X-G motif; other site 883006974 Response regulator receiver domain; Region: Response_reg; pfam00072 883006975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883006976 active site 883006977 phosphorylation site [posttranslational modification] 883006978 intermolecular recognition site; other site 883006979 dimerization interface [polypeptide binding]; other site 883006980 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 883006981 active site 883006982 putative substrate binding region [chemical binding]; other site 883006983 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 883006984 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 883006985 active site 883006986 HIGH motif; other site 883006987 dimer interface [polypeptide binding]; other site 883006988 KMSKS motif; other site 883006989 Flagellin N-methylase; Region: FliB; cl00497 883006990 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 883006991 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 883006992 active site 883006993 nucleotide binding site [chemical binding]; other site 883006994 HIGH motif; other site 883006995 KMSKS motif; other site 883006996 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 883006997 pyruvate phosphate dikinase; Provisional; Region: PRK05878 883006998 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883006999 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 883007000 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 883007001 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 883007002 Walker A motif; other site 883007003 ATP binding site [chemical binding]; other site 883007004 Walker B motif; other site 883007005 arginine finger; other site 883007006 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 883007007 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883007008 Response regulator receiver domain; Region: Response_reg; pfam00072 883007009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007010 active site 883007011 phosphorylation site [posttranslational modification] 883007012 intermolecular recognition site; other site 883007013 dimerization interface [polypeptide binding]; other site 883007014 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; cl12011 883007015 potential frameshift: common BLAST hit: gi|46581475|ref|YP_012283.1| ABC transporter permease 883007016 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 883007017 dimer interface [polypeptide binding]; other site 883007018 conserved gate region; other site 883007019 putative PBP binding loops; other site 883007020 ABC-ATPase subunit interface; other site 883007021 GAF domain; Region: GAF; cl00853 883007022 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883007023 PAS fold; Region: PAS_3; pfam08447 883007024 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 883007025 PAS domain S-box; Region: sensory_box; TIGR00229 883007026 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007027 putative active site [active] 883007028 heme pocket [chemical binding]; other site 883007029 PAS domain S-box; Region: sensory_box; TIGR00229 883007030 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883007031 PAS domain S-box; Region: sensory_box; TIGR00229 883007032 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007033 putative active site [active] 883007034 heme pocket [chemical binding]; other site 883007035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007036 metal binding site [ion binding]; metal-binding site 883007037 active site 883007038 I-site; other site 883007039 YceG-like family; Region: YceG; pfam02618 883007040 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 883007041 dimerization interface [polypeptide binding]; other site 883007042 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 883007043 FAD binding domain; Region: FAD_binding_4; pfam01565 883007044 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883007045 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883007046 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 883007047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883007048 Walker A motif; other site 883007049 ATP binding site [chemical binding]; other site 883007050 Walker B motif; other site 883007051 arginine finger; other site 883007052 Acylphosphatase; Region: Acylphosphatase; cl00551 883007053 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 883007054 HypF finger; Region: zf-HYPF; pfam07503 883007055 HypF finger; Region: zf-HYPF; pfam07503 883007056 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 883007057 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 883007058 non-specific DNA binding site [nucleotide binding]; other site 883007059 salt bridge; other site 883007060 sequence-specific DNA binding site [nucleotide binding]; other site 883007061 Cupin domain; Region: Cupin_2; cl09118 883007062 AMP-binding domain protein; Validated; Region: PRK08315 883007063 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883007064 FAD binding domain; Region: FAD_binding_2; pfam00890 883007065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883007066 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883007067 ligand binding site [chemical binding]; other site 883007068 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 883007069 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 883007070 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 883007071 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 883007072 Gram-negative bacterial tonB protein; Region: TonB; cl10048 883007073 Gram-negative bacterial tonB protein; Region: TonB; cl10048 883007074 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 883007075 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883007076 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 883007077 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 883007078 metal binding site 2 [ion binding]; metal-binding site 883007079 putative DNA binding helix; other site 883007080 metal binding site 1 [ion binding]; metal-binding site 883007081 dimer interface [polypeptide binding]; other site 883007082 structural Zn2+ binding site [ion binding]; other site 883007083 Rubrerythrin [Energy production and conversion]; Region: COG1592 883007084 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 883007085 binuclear metal center [ion binding]; other site 883007086 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 883007087 iron binding site [ion binding]; other site 883007088 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 883007089 Rubredoxin; Region: Rubredoxin; pfam00301 883007090 iron binding site [ion binding]; other site 883007091 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 883007092 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 883007093 TPR motif; other site 883007094 binding surface 883007095 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 883007096 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 883007097 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 883007098 catalytic site [active] 883007099 subunit interface [polypeptide binding]; other site 883007100 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 883007101 Ligand binding site; other site 883007102 oligomer interface; other site 883007103 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 883007104 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 883007105 G1 box; other site 883007106 putative GEF interaction site [polypeptide binding]; other site 883007107 GTP/Mg2+ binding site [chemical binding]; other site 883007108 Switch I region; other site 883007109 G2 box; other site 883007110 G3 box; other site 883007111 Switch II region; other site 883007112 G4 box; other site 883007113 G5 box; other site 883007114 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 883007115 PAS fold; Region: PAS_4; pfam08448 883007116 putative diguanylate cyclase; Provisional; Region: PRK09776 883007117 putative diguanylate cyclase; Provisional; Region: PRK09776 883007118 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 883007119 dimer interface [polypeptide binding]; other site 883007120 phosphorylation site [posttranslational modification] 883007121 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007122 ATP binding site [chemical binding]; other site 883007123 Mg2+ binding site [ion binding]; other site 883007124 G-X-G motif; other site 883007125 Response regulator receiver domain; Region: Response_reg; pfam00072 883007126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007127 active site 883007128 phosphorylation site [posttranslational modification] 883007129 intermolecular recognition site; other site 883007130 dimerization interface [polypeptide binding]; other site 883007131 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 883007132 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 883007133 FeS/SAM binding site; other site 883007134 HemN C-terminal region; Region: HemN_C; pfam06969 883007135 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 883007136 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 883007137 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 883007138 homodimer interface [polypeptide binding]; other site 883007139 oligonucleotide binding site [chemical binding]; other site 883007140 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 883007141 FeS/SAM binding site; other site 883007142 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 883007143 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; cl12011 883007144 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 883007145 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883007146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883007147 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883007148 ABC transporter; Region: ABC_tran_2; pfam12848 883007149 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883007150 peptide chain release factor 1; Validated; Region: prfA; PRK00591 883007151 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 883007152 active site 883007153 8-oxo-dGMP binding site [chemical binding]; other site 883007154 nudix motif; other site 883007155 metal binding site [ion binding]; metal-binding site 883007156 Protein of unknown function, DUF606; Region: DUF606; cl01273 883007157 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 883007158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883007159 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 883007160 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 883007161 Aminotransferase class IV; Region: Aminotran_4; pfam01063 883007162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883007163 catalytic residue [active] 883007164 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883007165 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 883007166 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 883007167 Cytochrome c552; Region: Cytochrom_C552; pfam02335 883007168 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 883007169 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 883007170 active site 883007171 4Fe-4S binding domain; Region: Fer4; cl02805 883007172 ferredoxin; Validated; Region: PRK07118 883007173 4Fe-4S binding domain; Region: Fer4; cl02805 883007174 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 883007175 active site 883007176 FMN binding site [chemical binding]; other site 883007177 substrate binding site [chemical binding]; other site 883007178 3Fe-4S cluster binding site [ion binding]; other site 883007179 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 883007180 domain_subunit interface; other site 883007181 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 883007182 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 883007183 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 883007184 P loop; other site 883007185 Nucleotide binding site [chemical binding]; other site 883007186 DTAP/Switch II; other site 883007187 Switch I; other site 883007188 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 883007189 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 883007190 P loop; other site 883007191 Nucleotide binding site [chemical binding]; other site 883007192 DTAP/Switch II; other site 883007193 Switch I; other site 883007194 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 883007195 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 883007196 dimerization interface [polypeptide binding]; other site 883007197 putative DNA binding site [nucleotide binding]; other site 883007198 putative Zn2+ binding site [ion binding]; other site 883007199 NlpC/P60 family; Region: NLPC_P60; cl11438 883007200 carbonic anhydrase; Provisional; Region: PRK15219 883007201 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 883007202 active site clefts [active] 883007203 zinc binding site [ion binding]; other site 883007204 dimer interface [polypeptide binding]; other site 883007205 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 883007206 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 883007207 Walker A/P-loop; other site 883007208 ATP binding site [chemical binding]; other site 883007209 Q-loop/lid; other site 883007210 ABC transporter signature motif; other site 883007211 Walker B; other site 883007212 D-loop; other site 883007213 H-loop/switch region; other site 883007214 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 883007215 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 883007216 Walker A/P-loop; other site 883007217 ATP binding site [chemical binding]; other site 883007218 Q-loop/lid; other site 883007219 ABC transporter signature motif; other site 883007220 Walker B; other site 883007221 D-loop; other site 883007222 H-loop/switch region; other site 883007223 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 883007224 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 883007225 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 883007226 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 883007227 dimer interface [polypeptide binding]; other site 883007228 conserved gate region; other site 883007229 putative PBP binding loops; other site 883007230 ABC-ATPase subunit interface; other site 883007231 nickel transporter permease NikB; Provisional; Region: PRK10352 883007232 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 883007233 dimer interface [polypeptide binding]; other site 883007234 conserved gate region; other site 883007235 putative PBP binding loops; other site 883007236 ABC-ATPase subunit interface; other site 883007237 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 883007238 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 883007239 substrate binding site [chemical binding]; other site 883007240 TOBE domain; Region: TOBE_2; cl01440 883007241 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 883007242 Tir chaperone protein (CesT); Region: CesT; cl08444 883007243 acyl-CoA synthetase; Provisional; Region: PTZ00216 883007244 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 883007245 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 883007246 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883007247 putative substrate translocation pore; other site 883007248 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883007249 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 883007250 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 883007251 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 883007252 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 883007253 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 883007254 Walker A motif; other site 883007255 ATP binding site [chemical binding]; other site 883007256 Walker B motif; other site 883007257 arginine finger; other site 883007258 Helix-turn-helix domains; Region: HTH; cl00088 883007259 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 883007260 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 883007261 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 883007262 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 883007263 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 883007264 FHIPEP family; Region: FHIPEP; pfam00771 883007265 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 883007266 HrpJ-like domain; Region: HrpJ; cl15454 883007267 TyeA; Region: TyeA; cl07611 883007268 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 883007269 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 883007270 binding surface 883007271 TPR motif; other site 883007272 YopD protein; Region: YopD; pfam05844 883007273 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 883007274 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 883007275 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 883007276 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 883007277 Type III secretion needle MxiH like; Region: MxiH; cl09641 883007278 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 883007279 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 883007280 type III secretion system protein; Reviewed; Region: PRK06937 883007281 Flagellar assembly protein FliH; Region: FliH; pfam02108 883007282 type III secretion system ATPase; Provisional; Region: PRK06936 883007283 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 883007284 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 883007285 Walker A motif/ATP binding site; other site 883007286 Walker B motif; other site 883007287 Type III secretion protein YscO; Region: YscO; pfam07321 883007288 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 883007289 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 883007290 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 883007291 FliP family; Region: FliP; cl00593 883007292 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 883007293 anti sigma factor interaction site; other site 883007294 regulatory phosphorylation site [posttranslational modification]; other site 883007295 Histidine kinase-like ATPases; This family includes several ATP-binding 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 883007296 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 catalyze...; Region: LT_GEWL; cd00254 883007297 N-acetyl-D-glucosamine binding site [chemical binding]; other site 883007298 catalytic residue [active] 883007299 oxidoreductase; Validated; Region: PRK05717 883007300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883007301 NAD(P) binding site [chemical binding]; other site 883007302 active site 883007303 HPP family; Region: HPP; pfam04982 883007304 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883007305 Protein of unknown function, DUF399; Region: DUF399; cl01139 883007306 Protein of unknown function, DUF399; Region: DUF399; cl01139 883007307 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 883007308 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15375 883007309 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 883007310 catalytic residue [active] 883007311 H2TH interface [polypeptide binding]; other site 883007312 putative catalytic residues [active] 883007313 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 883007314 DNA binding site [nucleotide binding] 883007315 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 883007316 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 883007317 Competence protein; Region: Competence; cl00471 883007318 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883007319 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 883007320 hinge; other site 883007321 active site 883007322 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 883007323 dimerization interface [polypeptide binding]; other site 883007324 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 883007325 dimer interface [polypeptide binding]; other site 883007326 phosphorylation site [posttranslational modification] 883007327 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007328 ATP binding site [chemical binding]; other site 883007329 Mg2+ binding site [ion binding]; other site 883007330 G-X-G motif; other site 883007331 autotransport protein MisL; Provisional; Region: PRK15313 883007332 Response regulator receiver domain; Region: Response_reg; pfam00072 883007333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007334 active site 883007335 phosphorylation site [posttranslational modification] 883007336 intermolecular recognition site; other site 883007337 dimerization interface [polypeptide binding]; other site 883007338 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 883007339 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007340 putative active site [active] 883007341 heme pocket [chemical binding]; other site 883007342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007343 metal binding site [ion binding]; metal-binding site 883007344 active site 883007345 I-site; other site 883007346 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 883007347 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 883007348 octamerization interface [polypeptide binding]; other site 883007349 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 883007350 diferric-oxygen binding site [ion binding]; other site 883007351 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 883007352 putative catalytic site [active] 883007353 putative metal binding site [ion binding]; other site 883007354 putative phosphate binding site [ion binding]; other site 883007355 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 883007356 Iron-sulfur protein interface; other site 883007357 proximal heme binding site [chemical binding]; other site 883007358 distal heme binding site [chemical binding]; other site 883007359 dimer interface [polypeptide binding]; other site 883007360 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 883007361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883007362 domain; Region: Succ_DH_flav_C; pfam02910 883007363 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 883007364 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 883007365 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 883007366 Fumarase C-terminus; Region: Fumerase_C; cl00795 883007367 TIGR00300 family protein; Region: TIGR00300 883007368 Uncharacterized conserved protein [Function unknown]; Region: COG1915 883007369 Helix-turn-helix domains; Region: HTH; cl00088 883007370 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 883007371 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 883007372 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 883007373 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 883007374 4Fe-4S binding domain; Region: Fer4; cl02805 883007375 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 883007376 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 883007377 putative [4Fe-4S] binding site [ion binding]; other site 883007378 putative molybdopterin cofactor binding site [chemical binding]; other site 883007379 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 883007380 molybdopterin cofactor binding site; other site 883007381 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 883007382 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 883007383 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 883007384 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 883007385 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 883007386 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 883007387 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 883007388 homodimer interaction site [polypeptide binding]; other site 883007389 cofactor binding site; other site 883007390 Phage integrase family; Region: Phage_integrase; pfam00589 883007391 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 883007392 DNA binding site [nucleotide binding] 883007393 active site 883007394 Int/Topo IB signature motif; other site 883007395 catalytic residues [active] 883007396 TOBE domain; Region: TOBE_2; cl01440 883007397 TOBE domain; Region: TOBE_2; cl01440 883007398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883007399 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 883007400 Walker A/P-loop; other site 883007401 ATP binding site [chemical binding]; other site 883007402 Q-loop/lid; other site 883007403 ABC transporter signature motif; other site 883007404 Walker B; other site 883007405 D-loop; other site 883007406 H-loop/switch region; other site 883007407 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 883007408 dimer interface [polypeptide binding]; other site 883007409 conserved gate region; other site 883007410 putative PBP binding loops; other site 883007411 ABC-ATPase subunit interface; other site 883007412 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 883007413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883007414 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883007415 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 883007416 Rubredoxin; Region: Rubredoxin; pfam00301 883007417 iron binding site [ion binding]; other site 883007418 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 883007419 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 883007420 non-heme iron binding site [ion binding]; other site 883007421 dimer interface [polypeptide binding]; other site 883007422 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 883007423 non-heme iron binding site [ion binding]; other site 883007424 dimer interface [polypeptide binding]; other site 883007425 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 883007426 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007427 PAS fold; Region: PAS_4; pfam08448 883007428 putative active site [active] 883007429 heme pocket [chemical binding]; other site 883007430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883007431 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883007432 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 883007433 PAS domain S-box; Region: sensory_box; TIGR00229 883007434 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883007435 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883007436 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 883007437 dimer interface [polypeptide binding]; other site 883007438 phosphorylation site [posttranslational modification] 883007439 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007440 ATP binding site [chemical binding]; other site 883007441 Mg2+ binding site [ion binding]; other site 883007442 G-X-G motif; other site 883007443 Response regulator receiver domain; Region: Response_reg; pfam00072 883007444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007445 active site 883007446 phosphorylation site [posttranslational modification] 883007447 intermolecular recognition site; other site 883007448 dimerization interface [polypeptide binding]; other site 883007449 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 883007450 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 883007451 dimerization interface [polypeptide binding]; other site 883007452 ATP binding site [chemical binding]; other site 883007453 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 883007454 dimerization interface [polypeptide binding]; other site 883007455 ATP binding site [chemical binding]; other site 883007456 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 883007457 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14262 883007458 Walker A/P-loop; other site 883007459 ATP binding site [chemical binding]; other site 883007460 Q-loop/lid; other site 883007461 ABC transporter signature motif; other site 883007462 Walker B; other site 883007463 D-loop; other site 883007464 H-loop/switch region; other site 883007465 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 883007466 dimer interface [polypeptide binding]; other site 883007467 conserved gate region; other site 883007468 putative PBP binding loops; other site 883007469 ABC-ATPase subunit interface; other site 883007470 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 883007471 dimer interface [polypeptide binding]; other site 883007472 conserved gate region; other site 883007473 putative PBP binding loops; other site 883007474 ABC-ATPase subunit interface; other site 883007475 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 883007476 HDOD domain; Region: HDOD; pfam08668 883007477 PAS fold; Region: PAS_4; pfam08448 883007478 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 883007479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883007480 metal binding site [ion binding]; metal-binding site 883007481 active site 883007482 I-site; other site 883007483 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 883007484 substrate binding pocket [chemical binding]; other site 883007485 chain length determination region; other site 883007486 substrate-Mg2+ binding site; other site 883007487 catalytic residues [active] 883007488 aspartate-rich region 1; other site 883007489 active site lid residues [active] 883007490 aspartate-rich region 2; other site 883007491 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 883007492 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 883007493 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 883007494 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 883007495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883007496 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 883007497 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 883007498 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 883007499 S-adenosylmethionine binding site [chemical binding]; other site 883007500 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; cl12011 883007501 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007502 heme-binding residues [chemical binding]; other site 883007503 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 883007504 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 883007505 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 883007506 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 883007507 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 883007508 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 883007509 inhibitor-cofactor binding pocket; inhibition site 883007510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883007511 catalytic residue [active] 883007512 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 883007513 Helix-turn-helix domains; Region: HTH; cl00088 883007514 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 883007515 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 883007516 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB...; Region: SelB; cd04171 883007517 G1 box; other site 883007518 putative GEF interaction site [polypeptide binding]; other site 883007519 GTP/Mg2+ binding site [chemical binding]; other site 883007520 Switch I region; other site 883007521 G2 box; other site 883007522 G3 box; other site 883007523 Switch II region; other site 883007524 G4 box; other site 883007525 G5 box; other site 883007526 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 883007527 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 883007528 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 883007529 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 883007530 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 883007531 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 883007532 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 883007533 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 883007534 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 883007535 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 883007536 putative nucleic acid binding region [nucleotide binding]; other site 883007537 G-X-X-G motif; other site 883007538 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 883007539 RNA binding site [nucleotide binding]; other site 883007540 domain interface; other site 883007541 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 883007542 16S/18S rRNA binding site [nucleotide binding]; other site 883007543 S13e-L30e interaction site [polypeptide binding]; other site 883007544 25S rRNA binding site [nucleotide binding]; other site 883007545 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 883007546 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 883007547 RNA binding site [nucleotide binding]; other site 883007548 active site 883007549 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 883007550 DHH family; Region: DHH; pfam01368 883007551 Protein of unknown function (DUF503); Region: DUF503; cl00669 883007552 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 883007553 translation initiation factor IF-2; Region: IF-2; TIGR00487 883007554 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 883007555 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 883007556 G1 box; other site 883007557 putative GEF interaction site [polypeptide binding]; other site 883007558 GTP/Mg2+ binding site [chemical binding]; other site 883007559 Switch I region; other site 883007560 G2 box; other site 883007561 G3 box; other site 883007562 Switch II region; other site 883007563 G4 box; other site 883007564 G5 box; other site 883007565 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 883007566 Translation-initiation factor 2; Region: IF-2; pfam11987 883007567 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 883007568 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 883007569 putative RNA binding cleft [nucleotide binding]; other site 883007570 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 883007571 NusA N-terminal domain; Region: NusA_N; pfam08529 883007572 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 883007573 RNA binding site [nucleotide binding]; other site 883007574 homodimer interface [polypeptide binding]; other site 883007575 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 883007576 G-X-X-G motif; other site 883007577 ribosome maturation protein RimP; Reviewed; Region: PRK00092 883007578 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 883007579 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 883007580 Sm1 motif; other site 883007581 D3 - B interaction site; other site 883007582 D1 - D2 interaction site; other site 883007583 Hfq - Hfq interaction site; other site 883007584 RNA binding pocket [nucleotide binding]; other site 883007585 Sm2 motif; other site 883007586 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 883007587 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883007588 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883007589 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 883007590 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883007591 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 883007592 SAF domain; Region: SAF; cl00555 883007593 Flagellar L-ring protein; Region: FlgH; cl00905 883007594 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 883007595 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 883007596 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 883007597 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 883007598 Rod binding protein; Region: Rod-binding; cl01626 883007599 Peptidase family M23; Region: Peptidase_M23; pfam01551 883007600 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 883007601 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 883007602 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 883007603 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 883007604 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 883007605 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883007606 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883007607 Global regulator protein family; Region: CsrA; cl00670 883007608 FliW protein; Region: FliW; cl00740 883007609 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883007610 GAF domain; Region: GAF; cl00853 883007611 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 883007612 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883007613 Walker A motif; other site 883007614 ATP binding site [chemical binding]; other site 883007615 Walker B motif; other site 883007616 arginine finger; other site 883007617 Helix-turn-helix domains; Region: HTH; cl00088 883007618 Mechanosensitive ion channel; Region: MS_channel; pfam00924 883007619 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 883007620 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007621 heme-binding residues [chemical binding]; other site 883007622 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 883007623 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 883007624 [4Fe-4S] binding site [ion binding]; other site 883007625 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 883007626 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 883007627 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 883007628 molybdopterin cofactor binding site; other site 883007629 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 883007630 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 883007631 S-adenosylmethionine binding site [chemical binding]; other site 883007632 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883007633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007634 active site 883007635 phosphorylation site [posttranslational modification] 883007636 intermolecular recognition site; other site 883007637 dimerization interface [polypeptide binding]; other site 883007638 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 883007639 Walker A motif; other site 883007640 ATP binding site [chemical binding]; other site 883007641 Walker B motif; other site 883007642 arginine finger; other site 883007643 PAS domain S-box; Region: sensory_box; TIGR00229 883007644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007645 putative active site [active] 883007646 heme pocket [chemical binding]; other site 883007647 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007648 PAS fold; Region: PAS_3; pfam08447 883007649 putative active site [active] 883007650 heme pocket [chemical binding]; other site 883007651 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007652 putative active site [active] 883007653 heme pocket [chemical binding]; other site 883007654 sensor protein ZraS; Provisional; Region: PRK10364 883007655 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007656 ATP binding site [chemical binding]; other site 883007657 Mg2+ binding site [ion binding]; other site 883007658 G-X-G motif; other site 883007659 Response regulator receiver domain; Region: Response_reg; pfam00072 883007660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007661 active site 883007662 phosphorylation site [posttranslational modification] 883007663 intermolecular recognition site; other site 883007664 dimerization interface [polypeptide binding]; other site 883007665 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883007666 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 883007667 substrate binding pocket [chemical binding]; other site 883007668 membrane-bound complex binding site; other site 883007669 hinge residues; other site 883007670 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883007672 putative active site [active] 883007673 heme pocket [chemical binding]; other site 883007674 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 883007675 dimer interface [polypeptide binding]; other site 883007676 phosphorylation site [posttranslational modification] 883007677 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007678 ATP binding site [chemical binding]; other site 883007679 Mg2+ binding site [ion binding]; other site 883007680 G-X-G motif; other site 883007681 Response regulator receiver domain; Region: Response_reg; pfam00072 883007682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007683 active site 883007684 phosphorylation site [posttranslational modification] 883007685 intermolecular recognition site; other site 883007686 dimerization interface [polypeptide binding]; other site 883007687 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883007688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007689 active site 883007690 phosphorylation site [posttranslational modification] 883007691 intermolecular recognition site; other site 883007692 dimerization interface [polypeptide binding]; other site 883007693 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883007694 PAS domain S-box; Region: sensory_box; TIGR00229 883007695 PAS domain S-box; Region: sensory_box; TIGR00229 883007696 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 883007697 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883007698 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007699 putative active site [active] 883007700 heme pocket [chemical binding]; other site 883007701 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 883007702 dimer interface [polypeptide binding]; other site 883007703 phosphorylation site [posttranslational modification] 883007704 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007705 ATP binding site [chemical binding]; other site 883007706 Mg2+ binding site [ion binding]; other site 883007707 G-X-G motif; other site 883007708 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883007709 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 883007710 dimerization interface [polypeptide binding]; other site 883007711 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883007712 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883007713 Response regulator receiver domain; Region: Response_reg; pfam00072 883007714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007715 active site 883007716 phosphorylation site [posttranslational modification] 883007717 intermolecular recognition site; other site 883007718 dimerization interface [polypeptide binding]; other site 883007719 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 883007720 dimer interface [polypeptide binding]; other site 883007721 phosphorylation site [posttranslational modification] 883007722 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007723 ATP binding site [chemical binding]; other site 883007724 Mg2+ binding site [ion binding]; other site 883007725 G-X-G motif; other site 883007726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883007727 Zn2+ binding site [ion binding]; other site 883007728 Mg2+ binding site [ion binding]; other site 883007729 Helix-turn-helix domains; Region: HTH; cl00088 883007730 Helix-turn-helix domains; Region: HTH; cl00088 883007731 Rrf2 family protein; Region: rrf2_super; TIGR00738 883007732 hypothetical protein; Region: PHA02030 883007733 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 883007734 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 883007735 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 883007736 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883007737 putative active site [active] 883007738 heme pocket [chemical binding]; other site 883007739 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 883007740 dimer interface [polypeptide binding]; other site 883007741 phosphorylation site [posttranslational modification] 883007742 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007743 ATP binding site [chemical binding]; other site 883007744 Mg2+ binding site [ion binding]; other site 883007745 G-X-G motif; other site 883007746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007747 Response regulator receiver domain; Region: Response_reg; pfam00072 883007748 active site 883007749 phosphorylation site [posttranslational modification] 883007750 intermolecular recognition site; other site 883007751 dimerization interface [polypeptide binding]; other site 883007752 sensor protein ZraS; Provisional; Region: PRK10364 883007753 Histidine kinase-like ATPases; This family includes several ATP-binding 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 883007754 Response regulator receiver domain; Region: Response_reg; pfam00072 883007755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007756 active site 883007757 phosphorylation site [posttranslational modification] 883007758 intermolecular recognition site; other site 883007759 dimerization interface [polypeptide binding]; other site 883007760 PAS fold; Region: PAS_4; pfam08448 883007761 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883007762 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007763 ATP binding site [chemical binding]; other site 883007764 Mg2+ binding site [ion binding]; other site 883007765 G-X-G motif; other site 883007766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007767 active site 883007768 phosphorylation site [posttranslational modification] 883007769 intermolecular recognition site; other site 883007770 dimerization interface [polypeptide binding]; other site 883007771 Response regulator receiver domain; Region: Response_reg; pfam00072 883007772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007773 active site 883007774 phosphorylation site [posttranslational modification] 883007775 intermolecular recognition site; other site 883007776 dimerization interface [polypeptide binding]; other site 883007777 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 883007778 Ligand Binding Site [chemical binding]; other site 883007779 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 883007780 Ligand Binding Site [chemical binding]; other site 883007781 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007782 heme-binding residues [chemical binding]; other site 883007783 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883007784 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883007785 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 883007786 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 883007787 conserved cys residue [active] 883007788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883007789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883007790 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 883007791 conserved cys residue [active] 883007792 Protein of unknown function (DUF721); Region: DUF721; cl02324 883007793 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 883007794 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 883007795 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883007796 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883007797 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 883007798 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 883007799 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 883007800 dimer interface [polypeptide binding]; other site 883007801 conserved gate region; other site 883007802 ABC-ATPase subunit interface; other site 883007803 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 883007804 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 883007805 dimer interface [polypeptide binding]; other site 883007806 conserved gate region; other site 883007807 putative PBP binding loops; other site 883007808 ABC-ATPase subunit interface; other site 883007809 Fic family protein [Function unknown]; Region: COG3177 883007810 Fic/DOC family; Region: Fic; cl00960 883007811 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 883007812 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 883007813 Walker A motif; other site 883007814 ATP binding site [chemical binding]; other site 883007815 Walker B motif; other site 883007816 arginine finger; other site 883007817 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 883007818 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883007819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007820 active site 883007821 phosphorylation site [posttranslational modification] 883007822 intermolecular recognition site; other site 883007823 dimerization interface [polypeptide binding]; other site 883007824 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 883007825 Walker A motif; other site 883007826 ATP binding site [chemical binding]; other site 883007827 Walker B motif; other site 883007828 arginine finger; other site 883007829 Helix-turn-helix domains; Region: HTH; cl00088 883007830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 883007831 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883007832 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 883007833 dimer interface [polypeptide binding]; other site 883007834 phosphorylation site [posttranslational modification] 883007835 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007836 ATP binding site [chemical binding]; other site 883007837 Mg2+ binding site [ion binding]; other site 883007838 G-X-G motif; other site 883007839 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 883007840 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 883007841 Ligand Binding Site [chemical binding]; other site 883007842 K+-transporting ATPase, c chain; Region: KdpC; cl00944 883007843 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 883007844 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883007845 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 883007846 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 883007847 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 883007848 F subunit of K+-transporting ATPase (Potass_KdpF); Region: Potass_KdpF; pfam09604 883007849 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 883007850 dimerization interface [polypeptide binding]; other site 883007851 putative DNA binding site [nucleotide binding]; other site 883007852 putative Zn2+ binding site [ion binding]; other site 883007853 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 883007854 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 883007855 S-adenosylmethionine binding site [chemical binding]; other site 883007856 Adenosylhomocysteinase; Provisional; Region: PTZ00075 883007857 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 883007858 oligomerization interface [polypeptide binding]; other site 883007859 active site 883007860 NAD+ binding site [chemical binding]; other site 883007861 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 883007862 Cation efflux family; Region: Cation_efflux; cl00316 883007863 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 883007864 Dak1 domain; Region: Dak1; pfam02733 883007865 DAK2 domain; Region: Dak2; cl03685 883007866 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 883007867 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 883007868 dimerization domain swap beta strand [polypeptide binding]; other site 883007869 regulatory protein interface [polypeptide binding]; other site 883007870 active site 883007871 regulatory phosphorylation site [posttranslational modification]; other site 883007872 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 883007873 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883007874 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; cl09155 883007875 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 883007876 Maf-like protein; Region: Maf; pfam02545 883007877 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 883007878 active site 883007879 dimer interface [polypeptide binding]; other site 883007880 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 883007881 tetramer interfaces [polypeptide binding]; other site 883007882 binuclear metal-binding site [ion binding]; other site 883007883 LysE type translocator; Region: LysE; cl00565 883007884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007885 Response regulator receiver domain; Region: Response_reg; pfam00072 883007886 active site 883007887 phosphorylation site [posttranslational modification] 883007888 intermolecular recognition site; other site 883007889 dimerization interface [polypeptide binding]; other site 883007890 Helix-turn-helix domains; Region: HTH; cl00088 883007891 Rrf2 family protein; Region: rrf2_super; TIGR00738 883007892 Response regulator receiver domain; Region: Response_reg; pfam00072 883007893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007894 active site 883007895 phosphorylation site [posttranslational modification] 883007896 intermolecular recognition site; other site 883007897 dimerization interface [polypeptide binding]; other site 883007898 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883007899 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883007900 Polysulphide reductase, NrfD; Region: NrfD; cl01295 883007901 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 883007902 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 883007903 4Fe-4S binding domain; Region: Fer4; cl02805 883007904 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007905 heme-binding residues [chemical binding]; other site 883007906 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007907 heme-binding residues [chemical binding]; other site 883007908 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007909 heme-binding residues [chemical binding]; other site 883007910 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883007911 heme-binding residues [chemical binding]; other site 883007912 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 883007913 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 883007914 Metal-binding active site; metal-binding site 883007915 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883007916 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883007917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883007918 active site 883007919 phosphorylation site [posttranslational modification] 883007920 intermolecular recognition site; other site 883007921 dimerization interface [polypeptide binding]; other site 883007922 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 883007923 Walker A motif; other site 883007924 ATP binding site [chemical binding]; other site 883007925 Walker B motif; other site 883007926 arginine finger; other site 883007927 Helix-turn-helix domains; Region: HTH; cl00088 883007928 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 883007929 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 883007930 phosphorylation site [posttranslational modification] 883007931 dimer interface [polypeptide binding]; other site 883007932 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883007933 ATP binding site [chemical binding]; other site 883007934 Mg2+ binding site [ion binding]; other site 883007935 G-X-G motif; other site 883007936 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 883007937 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 883007938 lipoyl-biotinyl attachment site [posttranslational modification]; other site 883007939 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 883007940 Ligand Binding Site [chemical binding]; other site 883007941 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 883007942 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 883007943 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 883007944 dimerization interface [polypeptide binding]; other site 883007945 ligand binding site [chemical binding]; other site 883007946 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 883007947 TM-ABC transporter signature motif; other site 883007948 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 883007949 TM-ABC transporter signature motif; other site 883007950 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883007951 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 883007952 Walker A/P-loop; other site 883007953 ATP binding site [chemical binding]; other site 883007954 Q-loop/lid; other site 883007955 ABC transporter signature motif; other site 883007956 Walker B; other site 883007957 D-loop; other site 883007958 H-loop/switch region; other site 883007959 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883007960 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 883007961 Walker A/P-loop; other site 883007962 ATP binding site [chemical binding]; other site 883007963 Q-loop/lid; other site 883007964 ABC transporter signature motif; other site 883007965 Walker B; other site 883007966 D-loop; other site 883007967 H-loop/switch region; other site 883007968 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 883007969 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 883007970 active site 883007971 catalytic residues [active] 883007972 metal binding site [ion binding]; metal-binding site 883007973 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 883007974 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 883007975 Nucleotide-binding sites [chemical binding]; other site 883007976 Walker A motif; other site 883007977 Switch I region of nucleotide binding site; other site 883007978 Fe4S4 binding sites [ion binding]; other site 883007979 Switch II region of nucleotide binding site; other site 883007980 Nitrogen regulatory protein P-II; Region: P-II; cl00412 883007981 Nitrogen regulatory protein P-II; Region: P-II; cl00412 883007982 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 883007983 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 883007984 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 883007985 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 883007986 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 883007987 FeS/SAM binding site; other site 883007988 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883007989 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 883007990 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 883007991 dimer interface [polypeptide binding]; other site 883007992 [2Fe-2S] cluster binding site [ion binding]; other site 883007993 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 883007994 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 883007995 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 883007996 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 883007997 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 883007998 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 883007999 FeS/SAM binding site; other site 883008000 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 883008001 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 883008002 active site residue [active] 883008003 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 883008004 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 883008005 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 883008006 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 883008007 Acetokinase family; Region: Acetate_kinase; cl01029 883008008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883008009 Helix-turn-helix domains; Region: HTH; cl00088 883008010 conserved hypothetical protein; Region: TIGR02231 883008011 Cupin domain; Region: Cupin_2; cl09118 883008012 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 883008013 Transglycosylase; Region: Transgly; cl07896 883008014 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 883008015 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 883008016 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 883008017 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 883008018 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 883008019 NAD(P) binding site [chemical binding]; other site 883008020 catalytic residues [active] 883008021 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 883008022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883008023 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 883008024 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883008025 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 883008026 substrate binding pocket [chemical binding]; other site 883008027 membrane-bound complex binding site; other site 883008028 hinge residues; other site 883008029 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883008030 metal binding site [ion binding]; metal-binding site 883008031 active site 883008032 I-site; other site 883008033 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 883008034 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 883008035 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883008036 PAS fold; Region: PAS; pfam00989 883008037 PAS fold; Region: PAS; pfam00989 883008038 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008039 putative active site [active] 883008040 heme pocket [chemical binding]; other site 883008041 PAS domain S-box; Region: sensory_box; TIGR00229 883008042 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008043 putative active site [active] 883008044 heme pocket [chemical binding]; other site 883008045 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883008046 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883008047 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 883008048 dimer interface [polypeptide binding]; other site 883008049 phosphorylation site [posttranslational modification] 883008050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008051 ATP binding site [chemical binding]; other site 883008052 Mg2+ binding site [ion binding]; other site 883008053 G-X-G motif; other site 883008054 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 883008055 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 883008056 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 883008057 Response regulator receiver domain; Region: Response_reg; pfam00072 883008058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008059 active site 883008060 phosphorylation site [posttranslational modification] 883008061 intermolecular recognition site; other site 883008062 dimerization interface [polypeptide binding]; other site 883008063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 883008064 active site 883008065 phosphorylation site [posttranslational modification] 883008066 intermolecular recognition site; other site 883008067 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 883008068 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883008069 Walker A motif; other site 883008070 ATP binding site [chemical binding]; other site 883008071 Walker B motif; other site 883008072 arginine finger; other site 883008073 Peptidase family U32; Region: Peptidase_U32; cl03113 883008074 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 883008075 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 883008076 Trm112p-like protein; Region: Trm112p; cl01066 883008077 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883008078 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 883008079 putative dimer interface [polypeptide binding]; other site 883008080 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883008081 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 883008082 putative dimer interface [polypeptide binding]; other site 883008083 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 883008084 active site 883008085 metal binding site [ion binding]; metal-binding site 883008086 homotetramer interface [polypeptide binding]; other site 883008087 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 883008088 FMN binding site [chemical binding]; other site 883008089 active site 883008090 catalytic residues [active] 883008091 substrate binding site [chemical binding]; other site 883008092 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 883008093 DNA binding residues [nucleotide binding] 883008094 putative dimer interface [polypeptide binding]; other site 883008095 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 883008096 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 883008097 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 883008098 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 883008099 serine O-acetyltransferase; Region: cysE; TIGR01172 883008100 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 883008101 trimer interface [polypeptide binding]; other site 883008102 active site 883008103 substrate binding site [chemical binding]; other site 883008104 CoA binding site [chemical binding]; other site 883008105 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 883008106 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 883008107 dimer interface [polypeptide binding]; other site 883008108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883008109 catalytic residue [active] 883008110 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 883008111 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 883008112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883008113 catalytic residue [active] 883008114 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 883008115 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 883008116 trimerization site [polypeptide binding]; other site 883008117 active site 883008118 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 883008119 NifU-like domain; Region: NifU; cl00484 883008120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883008121 Zn2+ binding site [ion binding]; other site 883008122 Mg2+ binding site [ion binding]; other site 883008123 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 883008124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883008125 Zn2+ binding site [ion binding]; other site 883008126 Mg2+ binding site [ion binding]; other site 883008127 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008128 PAS fold; Region: PAS_4; pfam08448 883008129 putative active site [active] 883008130 heme pocket [chemical binding]; other site 883008131 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008132 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883008133 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 883008134 Peptidase family M48; Region: Peptidase_M48; cl12018 883008135 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; cl09108 883008136 phosphate binding site [ion binding]; other site 883008137 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 883008138 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 883008139 Flagellar protein YcgR; Region: YcgR_2; pfam12945 883008140 PilZ domain; Region: PilZ; cl01260 883008141 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 883008142 RNA/DNA hybrid binding site [nucleotide binding]; other site 883008143 active site 883008144 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 883008145 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 883008146 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883008147 4Fe-4S binding domain; Region: Fer4; cl02805 883008148 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 883008149 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 883008150 active site 883008151 substrate binding site [chemical binding]; other site 883008152 metal binding site [ion binding]; metal-binding site 883008153 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 883008154 HflK protein; Region: hflK; TIGR01933 883008155 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 883008156 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 883008157 Helix-turn-helix domains; Region: HTH; cl00088 883008158 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 883008159 Catalytic site [active] 883008160 Response regulator receiver domain; Region: Response_reg; pfam00072 883008161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008162 active site 883008163 phosphorylation site [posttranslational modification] 883008164 intermolecular recognition site; other site 883008165 dimerization interface [polypeptide binding]; other site 883008166 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 883008167 dimer interface [polypeptide binding]; other site 883008168 phosphorylation site [posttranslational modification] 883008169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008170 ATP binding site [chemical binding]; other site 883008171 Mg2+ binding site [ion binding]; other site 883008172 G-X-G motif; other site 883008173 Response regulator receiver domain; Region: Response_reg; pfam00072 883008174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008175 active site 883008176 phosphorylation site [posttranslational modification] 883008177 intermolecular recognition site; other site 883008178 dimerization interface [polypeptide binding]; other site 883008179 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883008180 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 883008181 dimer interface [polypeptide binding]; other site 883008182 phosphorylation site [posttranslational modification] 883008183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008184 ATP binding site [chemical binding]; other site 883008185 Mg2+ binding site [ion binding]; other site 883008186 G-X-G motif; other site 883008187 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883008188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008189 active site 883008190 phosphorylation site [posttranslational modification] 883008191 intermolecular recognition site; other site 883008192 dimerization interface [polypeptide binding]; other site 883008193 Protein of unknown function (DUF972); Region: DUF972; pfam06156 883008194 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 883008195 Walker A motif; other site 883008196 ATP binding site [chemical binding]; other site 883008197 Walker B motif; other site 883008198 arginine finger; other site 883008199 Helix-turn-helix domains; Region: HTH; cl00088 883008200 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 883008201 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 883008202 Predicted transcriptional regulator [Transcription]; Region: COG1959 883008203 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 883008204 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 883008205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008206 ATP binding site [chemical binding]; other site 883008207 Mg2+ binding site [ion binding]; other site 883008208 G-X-G motif; other site 883008209 Response regulator receiver domain; Region: Response_reg; pfam00072 883008210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008211 active site 883008212 phosphorylation site [posttranslational modification] 883008213 intermolecular recognition site; other site 883008214 dimerization interface [polypeptide binding]; other site 883008215 PAS domain S-box; Region: sensory_box; TIGR00229 883008216 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008217 putative active site [active] 883008218 heme pocket [chemical binding]; other site 883008219 PAS domain S-box; Region: sensory_box; TIGR00229 883008220 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008221 putative active site [active] 883008222 heme pocket [chemical binding]; other site 883008223 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 883008224 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 883008225 dimer interface [polypeptide binding]; other site 883008226 phosphorylation site [posttranslational modification] 883008227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008228 ATP binding site [chemical binding]; other site 883008229 Mg2+ binding site [ion binding]; other site 883008230 G-X-G motif; other site 883008231 Response regulator receiver domain; Region: Response_reg; pfam00072 883008232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008233 active site 883008234 phosphorylation site [posttranslational modification] 883008235 intermolecular recognition site; other site 883008236 dimerization interface [polypeptide binding]; other site 883008237 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883008238 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 883008239 dimer interface [polypeptide binding]; other site 883008240 conserved gate region; other site 883008241 putative PBP binding loops; other site 883008242 ABC-ATPase subunit interface; other site 883008243 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 883008244 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883008245 substrate binding pocket [chemical binding]; other site 883008246 membrane-bound complex binding site; other site 883008247 hinge residues; other site 883008248 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 883008249 dimer interface [polypeptide binding]; other site 883008250 conserved gate region; other site 883008251 ABC-ATPase subunit interface; other site 883008252 Polysulphide reductase, NrfD; Region: NrfD; cl01295 883008253 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 883008254 4Fe-4S binding domain; Region: Fer4; cl02805 883008255 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 883008256 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 883008257 molybdopterin cofactor binding site; other site 883008258 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 883008259 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 883008260 heme-binding residues [chemical binding]; other site 883008261 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 883008262 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 883008263 Substrate binding site; other site 883008264 Cupin domain; Region: Cupin_2; cl09118 883008265 Cupin domain; Region: Cupin_2; cl09118 883008266 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 883008267 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 883008268 dimer interface [polypeptide binding]; other site 883008269 phosphorylation site [posttranslational modification] 883008270 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008271 ATP binding site [chemical binding]; other site 883008272 Mg2+ binding site [ion binding]; other site 883008273 G-X-G motif; other site 883008274 Response regulator receiver domain; Region: Response_reg; pfam00072 883008275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008276 active site 883008277 phosphorylation site [posttranslational modification] 883008278 intermolecular recognition site; other site 883008279 dimerization interface [polypeptide binding]; other site 883008280 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 883008281 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 883008282 NADP-binding site; other site 883008283 homotetramer interface [polypeptide binding]; other site 883008284 substrate binding site [chemical binding]; other site 883008285 homodimer interface [polypeptide binding]; other site 883008286 active site 883008287 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 883008288 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 883008289 NADP binding site [chemical binding]; other site 883008290 active site 883008291 putative substrate binding site [chemical binding]; other site 883008292 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 883008293 active site 883008294 OpgC protein; Region: OpgC_C; cl00792 883008295 Acyltransferase family; Region: Acyl_transf_3; pfam01757 883008296 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; cl12011 883008297 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 883008298 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 883008299 active site 883008300 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 883008301 ABC-2 type transporter; Region: ABC2_membrane; cl11417 883008302 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 883008303 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 883008304 Walker A/P-loop; other site 883008305 ATP binding site [chemical binding]; other site 883008306 Q-loop/lid; other site 883008307 ABC transporter signature motif; other site 883008308 Walker B; other site 883008309 D-loop; other site 883008310 H-loop/switch region; other site 883008311 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 883008312 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; cl12011 883008313 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 883008314 ParB-like nuclease domain; Region: ParBc; cl02129 883008315 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 883008316 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 883008317 active site 883008318 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 883008319 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 883008320 Probable Catalytic site; other site 883008321 metal-binding site 883008322 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883008323 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 883008324 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008325 putative active site [active] 883008326 heme pocket [chemical binding]; other site 883008327 PAS fold; Region: PAS_4; pfam08448 883008328 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008329 putative active site [active] 883008330 heme pocket [chemical binding]; other site 883008331 Helix-turn-helix domains; Region: HTH; cl00088 883008332 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 883008333 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 883008334 putative FMN binding site [chemical binding]; other site 883008335 NADPH bind site [chemical binding]; other site 883008336 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 883008337 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008338 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883008339 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 883008340 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 883008341 PAS fold; Region: PAS_4; pfam08448 883008342 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008343 putative active site [active] 883008344 heme pocket [chemical binding]; other site 883008345 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008346 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883008347 4Fe-4S binding domain; Region: Fer4_5; pfam12801 883008348 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 883008349 Uncharacterized conserved protein [Function unknown]; Region: COG2006 883008350 Domain of unknown function (DUF362); Region: DUF362; pfam04015 883008351 GTP-binding protein LepA; Provisional; Region: PRK05433 883008352 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 883008353 G1 box; other site 883008354 putative GEF interaction site [polypeptide binding]; other site 883008355 GTP/Mg2+ binding site [chemical binding]; other site 883008356 Switch I region; other site 883008357 G2 box; other site 883008358 G3 box; other site 883008359 Switch II region; other site 883008360 G4 box; other site 883008361 G5 box; other site 883008362 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 883008363 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 883008364 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 883008365 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 883008366 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 883008367 Catalytic site [active] 883008368 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 883008369 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 883008370 putative active site [active] 883008371 catalytic site [active] 883008372 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 883008373 His-Xaa-Ser system radical SAM maturase HsxB; Region: rSAM_paired_1; TIGR03978 883008374 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 883008375 FeS/SAM binding site; other site 883008376 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 883008377 His-Xaa-Ser system radical SAM maturase HsxC; Region: rSAM_paired_2; TIGR03977 883008378 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 883008379 FeS/SAM binding site; other site 883008380 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 883008381 catalytic residues [active] 883008382 catalytic nucleophile [active] 883008383 Recombinase; Region: Recombinase; pfam07508 883008384 ParB-like nuclease domain; Region: ParBc; cl02129 883008385 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 883008386 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 883008387 catalytic residues [active] 883008388 catalytic nucleophile [active] 883008389 Recombinase; Region: Recombinase; pfam07508 883008390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883008391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 883008392 active site 883008393 phosphorylation site [posttranslational modification] 883008394 intermolecular recognition site; other site 883008395 PAS domain S-box; Region: sensory_box; TIGR00229 883008396 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008397 putative active site [active] 883008398 heme pocket [chemical binding]; other site 883008399 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883008400 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 883008401 dimer interface [polypeptide binding]; other site 883008402 phosphorylation site [posttranslational modification] 883008403 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008404 ATP binding site [chemical binding]; other site 883008405 Mg2+ binding site [ion binding]; other site 883008406 G-X-G motif; other site 883008407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008408 active site 883008409 phosphorylation site [posttranslational modification] 883008410 intermolecular recognition site; other site 883008411 dimerization interface [polypeptide binding]; other site 883008412 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 883008413 TadE-like protein; Region: TadE; pfam07811 883008414 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 883008415 Predicted membrane protein (DUF2134); Region: DUF2134; pfam09977 883008416 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 883008417 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 883008418 TadE-like protein; Region: TadE; pfam07811 883008419 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 883008420 binding surface 883008421 TPR motif; other site 883008422 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 883008423 binding surface 883008424 TPR motif; other site 883008425 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 883008426 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 883008427 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 883008428 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 883008429 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 883008430 ATP binding site [chemical binding]; other site 883008431 Walker A motif; other site 883008432 hexamer interface [polypeptide binding]; other site 883008433 Walker B motif; other site 883008434 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 883008435 BON domain; Region: BON; cl02771 883008436 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 883008437 SAF domain; Region: SAF; cl00555 883008438 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883008439 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883008440 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883008441 Flp/Fap pilin component; Region: Flp_Fap; cl01585 883008442 Response regulator receiver domain; Region: Response_reg; pfam00072 883008443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008444 active site 883008445 phosphorylation site [posttranslational modification] 883008446 intermolecular recognition site; other site 883008447 dimerization interface [polypeptide binding]; other site 883008448 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 883008449 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883008450 Walker A motif; other site 883008451 ATP binding site [chemical binding]; other site 883008452 Walker B motif; other site 883008453 arginine finger; other site 883008454 Helix-turn-helix domains; Region: HTH; cl00088 883008455 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 883008456 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883008457 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 883008458 dimerization interface [polypeptide binding]; other site 883008459 ligand binding site [chemical binding]; other site 883008460 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 883008461 TM-ABC transporter signature motif; other site 883008462 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 883008463 TM-ABC transporter signature motif; other site 883008464 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 883008465 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 883008466 Walker A/P-loop; other site 883008467 ATP binding site [chemical binding]; other site 883008468 Q-loop/lid; other site 883008469 ABC transporter signature motif; other site 883008470 Walker B; other site 883008471 D-loop; other site 883008472 H-loop/switch region; other site 883008473 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 883008474 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 883008475 Walker A/P-loop; other site 883008476 ATP binding site [chemical binding]; other site 883008477 Q-loop/lid; other site 883008478 ABC transporter signature motif; other site 883008479 Walker B; other site 883008480 D-loop; other site 883008481 H-loop/switch region; other site 883008482 Response regulator receiver domain; Region: Response_reg; pfam00072 883008483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008484 active site 883008485 phosphorylation site [posttranslational modification] 883008486 intermolecular recognition site; other site 883008487 dimerization interface [polypeptide binding]; other site 883008488 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 883008489 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 883008490 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 883008491 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 883008492 Cache domain; Region: Cache_1; pfam02743 883008493 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 883008494 dimerization interface [polypeptide binding]; other site 883008495 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883008496 metal binding site [ion binding]; metal-binding site 883008497 active site 883008498 I-site; other site 883008499 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 883008500 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 883008501 catalytic residues [active] 883008502 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 883008503 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 883008504 MASE1; Region: MASE1; pfam05231 883008505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883008506 metal binding site [ion binding]; metal-binding site 883008507 active site 883008508 I-site; other site 883008509 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 883008510 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 883008511 octamerization interface [polypeptide binding]; other site 883008512 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 883008513 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 883008514 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 883008515 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 883008516 HIGH motif; other site 883008517 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 883008518 active site 883008519 KMSKS motif; other site 883008520 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 883008521 tRNA binding surface [nucleotide binding]; other site 883008522 anticodon binding site; other site 883008523 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 883008524 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 883008525 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 883008526 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 883008527 active site 883008528 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 883008529 MOSC domain; Region: MOSC; pfam03473 883008530 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 883008531 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 883008532 active site 883008533 substrate binding site [chemical binding]; other site 883008534 cosubstrate binding site; other site 883008535 catalytic site [active] 883008536 LysE type translocator; Region: LysE; cl00565 883008537 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883008538 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 883008539 dimer interface [polypeptide binding]; other site 883008540 phosphorylation site [posttranslational modification] 883008541 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008542 ATP binding site [chemical binding]; other site 883008543 G-X-G motif; other site 883008544 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 883008545 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 883008546 ligand binding site [chemical binding]; other site 883008547 AMMECR1; Region: AMMECR1; cl00911 883008548 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 883008549 Ligand Binding Site [chemical binding]; other site 883008550 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883008551 PAS fold; Region: PAS_4; pfam08448 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; cl02459 883008553 PAS fold; Region: PAS_4; pfam08448 883008554 PAS domain S-box; Region: sensory_box; TIGR00229 883008555 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883008556 putative active site [active] 883008557 heme pocket [chemical binding]; other site 883008558 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 883008559 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 883008560 phosphorylation site [posttranslational modification] 883008561 dimer interface [polypeptide binding]; other site 883008562 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008563 ATP binding site [chemical binding]; other site 883008564 G-X-G motif; other site 883008565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008566 active site 883008567 phosphorylation site [posttranslational modification] 883008568 intermolecular recognition site; other site 883008569 dimerization interface [polypeptide binding]; other site 883008570 PAS fold; Region: PAS_4; pfam08448 883008571 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 883008572 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883008573 Walker A motif; other site 883008574 ATP binding site [chemical binding]; other site 883008575 Walker B motif; other site 883008576 arginine finger; other site 883008577 Epoxide hydrolase N terminus; Region: EHN; pfam06441 883008578 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 883008579 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 883008580 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883008581 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 883008582 Walker A/P-loop; other site 883008583 ATP binding site [chemical binding]; other site 883008584 Q-loop/lid; other site 883008585 ABC transporter signature motif; other site 883008586 Walker B; other site 883008587 D-loop; other site 883008588 H-loop/switch region; other site 883008589 acetyl-CoA synthetase; Provisional; Region: PRK00174 883008590 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 883008591 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 883008592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008593 Response regulator receiver domain; Region: Response_reg; pfam00072 883008594 active site 883008595 phosphorylation site [posttranslational modification] 883008596 intermolecular recognition site; other site 883008597 dimerization interface [polypeptide binding]; other site 883008598 LytTr DNA-binding domain; Region: LytTR; cl04498 883008599 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 883008600 PAS fold; Region: PAS_4; pfam08448 883008601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883008602 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883008603 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 883008604 dimer interface [polypeptide binding]; other site 883008605 conserved gate region; other site 883008606 putative PBP binding loops; other site 883008607 ABC-ATPase subunit interface; other site 883008608 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883008609 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 883008610 dimer interface [polypeptide binding]; other site 883008611 conserved gate region; other site 883008612 putative PBP binding loops; other site 883008613 ABC-ATPase subunit interface; other site 883008614 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883008615 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 883008616 substrate binding pocket [chemical binding]; other site 883008617 membrane-bound complex binding site; other site 883008618 hinge residues; other site 883008619 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883008620 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 883008621 Walker A/P-loop; other site 883008622 ATP binding site [chemical binding]; other site 883008623 Q-loop/lid; other site 883008624 ABC transporter signature motif; other site 883008625 Walker B; other site 883008626 D-loop; other site 883008627 H-loop/switch region; other site 883008628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 883008629 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008630 ATP binding site [chemical binding]; other site 883008631 Mg2+ binding site [ion binding]; other site 883008632 G-X-G motif; other site 883008633 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 883008634 PilZ domain; Region: PilZ; cl01260 883008635 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 883008636 active site residue [active] 883008637 YceI-like domain; Region: YceI; cl01001 883008638 Pirin-related protein [General function prediction only]; Region: COG1741 883008639 Cupin domain; Region: Cupin_2; cl09118 883008640 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 883008641 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 883008642 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 883008643 TPR motif; other site 883008644 binding surface 883008645 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 883008646 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 883008647 IHF dimer interface [polypeptide binding]; other site 883008648 IHF - DNA interface [nucleotide binding]; other site 883008649 TfoX N-terminal domain; Region: TfoX_N; cl01167 883008650 MOFRL family; Region: MOFRL; cl01013 883008651 BON domain; Region: BON; cl02771 883008652 BON domain; Region: BON; cl02771 883008653 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 883008654 Rubredoxin; Region: Rubredoxin; pfam00301 883008655 iron binding site [ion binding]; other site 883008656 Chromate transporter; Region: Chromate_transp; pfam02417 883008657 Chromate transporter; Region: Chromate_transp; pfam02417 883008658 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 883008659 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 883008660 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 883008661 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 883008662 Major Facilitator Superfamily; Region: MFS_1; pfam07690 883008663 putative substrate translocation pore; other site 883008664 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883008665 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 883008666 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 883008667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883008668 catalytic residue [active] 883008669 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 883008670 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 883008671 dimer interface [polypeptide binding]; other site 883008672 pyridoxal binding site [chemical binding]; other site 883008673 ATP binding site [chemical binding]; other site 883008674 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 883008675 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 883008676 DNA binding site [nucleotide binding] 883008677 active site 883008678 Int/Topo IB signature motif; other site 883008679 catalytic residues [active] 883008680 TOBE domain; Region: TOBE_2; cl01440 883008681 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 883008682 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 883008683 histidinol dehydrogenase; Region: hisD; TIGR00069 883008684 NAD binding site [chemical binding]; other site 883008685 dimerization interface [polypeptide binding]; other site 883008686 product binding site; other site 883008687 substrate binding site [chemical binding]; other site 883008688 zinc binding site [ion binding]; other site 883008689 catalytic residues [active] 883008690 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 883008691 ATP binding site [chemical binding]; other site 883008692 active site 883008693 substrate binding site [chemical binding]; other site 883008694 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 883008695 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 883008696 NAD binding site [chemical binding]; other site 883008697 homotetramer interface [polypeptide binding]; other site 883008698 homodimer interface [polypeptide binding]; other site 883008699 substrate binding site [chemical binding]; other site 883008700 active site 883008701 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 883008702 DNA binding site [nucleotide binding] 883008703 active site 883008704 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 883008705 rod shape-determining protein MreB; Provisional; Region: PRK13927 883008706 Cell division protein FtsA; Region: FtsA; cl11496 883008707 rod shape-determining protein MreC; Region: MreC; pfam04085 883008708 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 883008709 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 883008710 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 883008711 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 883008712 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 883008713 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 883008714 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 883008715 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 883008716 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 883008717 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 883008718 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 883008719 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 883008720 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 883008721 beta subunit interaction interface [polypeptide binding]; other site 883008722 Walker A motif; other site 883008723 ATP binding site [chemical binding]; other site 883008724 Walker B motif; other site 883008725 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 883008726 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 883008727 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 883008728 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 883008729 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 883008730 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 883008731 alpha subunit interaction interface [polypeptide binding]; other site 883008732 Walker A motif; other site 883008733 ATP binding site [chemical binding]; other site 883008734 Walker B motif; other site 883008735 inhibitor binding site; inhibition site 883008736 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 883008737 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 883008738 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 883008739 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 883008740 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 883008741 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 883008742 putative ligand binding site [chemical binding]; other site 883008743 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 883008744 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 883008745 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 883008746 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 883008747 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 883008748 Ligand Binding Site [chemical binding]; other site 883008749 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 883008750 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 883008751 Response regulator receiver domain; Region: Response_reg; pfam00072 883008752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008753 active site 883008754 phosphorylation site [posttranslational modification] 883008755 intermolecular recognition site; other site 883008756 dimerization interface [polypeptide binding]; other site 883008757 Response regulator receiver domain; Region: Response_reg; pfam00072 883008758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008759 active site 883008760 phosphorylation site [posttranslational modification] 883008761 intermolecular recognition site; other site 883008762 dimerization interface [polypeptide binding]; other site 883008763 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 883008764 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883008765 Walker A motif; other site 883008766 ATP binding site [chemical binding]; other site 883008767 Walker B motif; other site 883008768 arginine finger; other site 883008769 Helix-turn-helix domains; Region: HTH; cl00088 883008770 sensory histidine kinase AtoS; Provisional; Region: PRK11360 883008771 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883008772 ATP binding site [chemical binding]; other site 883008773 G-X-G motif; other site 883008774 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 883008775 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 883008776 GIY-YIG motif/motif A; other site 883008777 active site 883008778 catalytic site [active] 883008779 putative DNA binding site [nucleotide binding]; other site 883008780 metal binding site [ion binding]; metal-binding site 883008781 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 883008782 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 883008783 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 883008784 FOG: CBS domain [General function prediction only]; Region: COG0517 883008785 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 883008786 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 883008787 Uncharacterized conserved protein [Function unknown]; Region: COG1284 883008788 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 883008789 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 883008790 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 883008791 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 883008792 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 883008793 binding surface 883008794 TPR motif; other site 883008795 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 883008796 binding surface 883008797 TPR motif; other site 883008798 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 883008799 putative FMN binding site [chemical binding]; other site 883008800 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883008801 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883008802 DNA utilization protein GntX; Provisional; Region: PRK11595 883008803 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883008804 short chain dehydrogenase; Provisional; Region: PRK12937 883008805 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 883008806 NADP binding site [chemical binding]; other site 883008807 homodimer interface [polypeptide binding]; other site 883008808 active site 883008809 substrate binding site [chemical binding]; other site 883008810 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 883008811 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 883008812 Response regulator receiver domain; Region: Response_reg; pfam00072 883008813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883008814 active site 883008815 phosphorylation site [posttranslational modification] 883008816 intermolecular recognition site; other site 883008817 dimerization interface [polypeptide binding]; other site 883008818 Tim44-like domain; Region: Tim44; cl09208 883008819 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 883008820 catalytic triad [active] 883008821 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 883008822 cobyric acid synthase; Provisional; Region: PRK00784 883008823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883008824 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 883008825 catalytic triad [active] 883008826 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 883008827 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 883008828 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 883008829 ligand binding site [chemical binding]; other site 883008830 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 883008831 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 883008832 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 883008833 heterotetramer interface [polypeptide binding]; other site 883008834 active site pocket [active] 883008835 cleavage site 883008836 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 883008837 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883008838 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 883008839 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 883008840 nucleotide binding region [chemical binding]; other site 883008841 ATP-binding site [chemical binding]; other site 883008842 SEC-C motif; Region: SEC-C; pfam02810 883008843 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 883008844 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 883008845 FAD binding domain; Region: FAD_binding_4; pfam01565 883008846 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 883008847 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 883008848 SmpB-tmRNA interface; other site 883008849 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 883008850 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 883008851 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 883008852 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; cl09155 883008853 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 883008854 dimerization domain swap beta strand [polypeptide binding]; other site 883008855 regulatory protein interface [polypeptide binding]; other site 883008856 active site 883008857 regulatory phosphorylation site [posttranslational modification]; other site 883008858 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 883008859 Predicted methyltransferases [General function prediction only]; Region: COG0313 883008860 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 883008861 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 883008862 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 883008863 RNA/DNA hybrid binding site [nucleotide binding]; other site 883008864 active site 883008865 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 883008866 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 883008867 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 883008868 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 883008869 RimM N-terminal domain; Region: RimM; pfam01782 883008870 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 883008871 hypothetical protein; Provisional; Region: PRK00468; cl00794 883008872 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 883008873 signal recognition particle protein; Provisional; Region: PRK10867 883008874 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 883008875 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 883008876 P loop; other site 883008877 GTP binding site [chemical binding]; other site 883008878 Signal peptide binding domain; Region: SRP_SPB; pfam02978 883008879 aspartate aminotransferase; Provisional; Region: PRK06836 883008880 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 883008881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883008882 homodimer interface [polypeptide binding]; other site 883008883 catalytic residue [active] 883008884 Chorismate mutase type II; Region: CM_2; cl00693 883008885 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 883008886 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 883008887 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 883008888 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 883008889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883008890 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 883008891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883008892 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 883008893 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 883008894 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 883008895 CitB domain protein; Region: CitB; TIGR02484 883008896 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 883008897 hypothetical protein; Provisional; Region: PRK11281 883008898 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 883008899 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 883008900 Helix-turn-helix domains; Region: HTH; cl00088 883008901 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 883008902 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 883008903 FeS/SAM binding site; other site 883008904 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 883008905 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 883008906 dimer interface [polypeptide binding]; other site 883008907 active site 883008908 Schiff base residues; other site 883008909 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 883008910 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 883008911 FeS/SAM binding site; other site 883008912 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 883008913 Family of unknown function (DUF490); Region: DUF490; pfam04357 883008914 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 883008915 Surface antigen; Region: Bac_surface_Ag; cl03097 883008916 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 883008917 Yip1 domain; Region: Yip1; cl12048 883008918 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 883008919 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 883008920 Flagellar protein FliS; Region: FliS; cl00654 883008921 flagellar capping protein; Validated; Region: fliD; PRK07737 883008922 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 883008923 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 883008924 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 883008925 RIP metalloprotease RseP; Region: TIGR00054 883008926 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 883008927 active site 883008928 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 883008929 protein binding site [polypeptide binding]; other site 883008930 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 883008931 putative substrate binding region [chemical binding]; other site 883008932 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 883008933 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 883008934 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 883008935 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 883008936 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 883008937 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 883008938 catalytic residue [active] 883008939 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 883008940 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 883008941 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 883008942 catalytic residue [active] 883008943 putative FPP diphosphate binding site; other site 883008944 putative FPP binding hydrophobic cleft; other site 883008945 dimer interface [polypeptide binding]; other site 883008946 putative IPP diphosphate binding site; other site 883008947 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 round of...; Region: RRF; cd00520 883008948 hinge region; other site 883008949 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 883008950 putative nucleotide binding site [chemical binding]; other site 883008951 uridine monophosphate binding site [chemical binding]; other site 883008952 homohexameric interface [polypeptide binding]; other site 883008953 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 883008954 putative metal binding site; other site 883008955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883008956 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 883008957 NAD(P) binding site [chemical binding]; other site 883008958 active site 883008959 elongation factor Ts; Reviewed; Region: tsf; PRK12332 883008960 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 883008961 Elongation factor TS; Region: EF_TS; pfam00889 883008962 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 883008963 rRNA interaction site [nucleotide binding]; other site 883008964 S8 interaction site; other site 883008965 putative laminin-1 binding site; other site 883008966 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 883008967 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 883008968 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 883008969 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883008970 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 883008971 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 883008972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883008973 FemAB family; Region: FemAB; cl11444 883008974 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 883008975 Transcriptional regulators [Transcription]; Region: GntR; COG1802 883008976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883008977 DNA-binding site [nucleotide binding]; DNA binding site 883008978 FCD domain; Region: FCD; cl11656 883008979 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G_bact; cd04170 883008980 elongation factor G; Reviewed; Region: PRK12740 883008981 G1 box; other site 883008982 putative GEF interaction site [polypeptide binding]; other site 883008983 GTP/Mg2+ binding site [chemical binding]; other site 883008984 Switch I region; other site 883008985 G2 box; other site 883008986 G3 box; other site 883008987 Switch II region; other site 883008988 G4 box; other site 883008989 G5 box; other site 883008990 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 883008991 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 883008992 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 883008993 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 883008994 catalytic residues [active] 883008995 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 883008996 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 883008997 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 883008998 substrate binding site [chemical binding]; other site 883008999 ATP binding site [chemical binding]; other site 883009000 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 883009001 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 883009002 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 883009003 minor groove reading motif; other site 883009004 helix-hairpin-helix signature motif; other site 883009005 substrate binding pocket [chemical binding]; other site 883009006 active site 883009007 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 883009008 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 883009009 active site 883009010 substrate binding site [chemical binding]; other site 883009011 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 883009012 Response regulator receiver domain; Region: Response_reg; pfam00072 883009013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883009014 active site 883009015 phosphorylation site [posttranslational modification] 883009016 intermolecular recognition site; other site 883009017 dimerization interface [polypeptide binding]; other site 883009018 PilZ domain; Region: PilZ; cl01260 883009019 S-adenosylmethionine synthetase; Validated; Region: PRK05250 883009020 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 883009021 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 883009022 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 883009023 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 883009024 Pantoate-beta-alanine ligase; Region: PanC; cd00560 883009025 active site 883009026 ATP-binding site [chemical binding]; other site 883009027 pantoate-binding site; other site 883009028 HXXH motif; other site 883009029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 883009030 Cupin domain; Region: Cupin_2; cl09118 883009031 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 883009032 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 883009033 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 883009034 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 883009035 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 883009036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 883009037 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 883009038 oligomerization interface [polypeptide binding]; other site 883009039 active site 883009040 metal binding site [ion binding]; metal-binding site 883009041 flagellin; Provisional; Region: PRK12802 883009042 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 883009043 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 883009044 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 883009045 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883009046 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 883009047 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883009048 FtsX-like permease family; Region: FtsX; pfam02687 883009049 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883009050 FtsX-like permease family; Region: FtsX; pfam02687 883009051 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 883009052 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883009053 Walker A/P-loop; other site 883009054 ATP binding site [chemical binding]; other site 883009055 Q-loop/lid; other site 883009056 ABC transporter signature motif; other site 883009057 Walker B; other site 883009058 D-loop; other site 883009059 H-loop/switch region; other site 883009060 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 883009061 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 883009062 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 883009063 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 883009064 putative dimer interface [polypeptide binding]; other site 883009065 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 883009066 putative dimer interface [polypeptide binding]; other site 883009067 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 883009068 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 883009069 Survival protein SurE; Region: SurE; cl00448 883009070 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883009071 putative active site [active] 883009072 heme pocket [chemical binding]; other site 883009073 PAS domain S-box; Region: sensory_box; TIGR00229 883009074 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883009075 PAS domain S-box; Region: sensory_box; TIGR00229 883009076 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883009077 putative active site [active] 883009078 heme pocket [chemical binding]; other site 883009079 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 883009080 GAF domain; Region: GAF; cl00853 883009081 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883009082 metal binding site [ion binding]; metal-binding site 883009083 active site 883009084 I-site; other site 883009085 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 883009086 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 883009087 RNA/DNA binding site [nucleotide binding]; other site 883009088 RRM dimerization site [polypeptide binding]; other site 883009089 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 883009090 Predicted permeases [General function prediction only]; Region: RarD; COG2962 883009091 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 883009092 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 883009093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883009094 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 883009095 Walker A/P-loop; other site 883009096 ATP binding site [chemical binding]; other site 883009097 Q-loop/lid; other site 883009098 ABC transporter signature motif; other site 883009099 Walker B; other site 883009100 D-loop; other site 883009101 H-loop/switch region; other site 883009102 TOBE domain; Region: TOBE_2; cl01440 883009103 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 883009104 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 883009105 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 883009106 dimer interface [polypeptide binding]; other site 883009107 conserved gate region; other site 883009108 putative PBP binding loops; other site 883009109 ABC-ATPase subunit interface; other site 883009110 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 883009111 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 883009112 active site 883009113 catalytic site [active] 883009114 Helix-turn-helix domains; Region: HTH; cl00088 883009115 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 883009116 putative FMN binding site [chemical binding]; other site 883009117 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 883009118 active site 1 [active] 883009119 dimer interface [polypeptide binding]; other site 883009120 hexamer interface [polypeptide binding]; other site 883009121 active site 2 [active] 883009122 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 883009123 active site 883009124 FMN binding site [chemical binding]; other site 883009125 substrate binding site [chemical binding]; other site 883009126 putative catalytic residue [active] 883009127 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 883009128 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 883009129 active site residue [active] 883009130 VanZ like family; Region: VanZ; cl01971 883009131 SlyX; Region: SlyX; cl01090 883009132 EVE domain; Region: EVE; cl00728 883009133 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 883009134 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 883009135 PAS domain S-box; Region: sensory_box; TIGR00229 883009136 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883009137 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 883009138 GAF domain; Region: GAF; cl00853 883009139 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 883009140 dimer interface [polypeptide binding]; other site 883009141 phosphorylation site [posttranslational modification] 883009142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 883009143 ATP binding site [chemical binding]; other site 883009144 Mg2+ binding site [ion binding]; other site 883009145 G-X-G motif; other site 883009146 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 883009147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883009148 active site 883009149 phosphorylation site [posttranslational modification] 883009150 intermolecular recognition site; other site 883009151 dimerization interface [polypeptide binding]; other site 883009152 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 883009153 Ca2+ binding site [ion binding]; other site 883009154 Cache domain; Region: Cache_1; pfam02743 883009155 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 883009156 dimerization interface [polypeptide binding]; other site 883009157 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883009158 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883009159 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 883009160 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 883009161 Radical SAM superfamily; Region: Radical_SAM; pfam04055 883009162 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 883009163 FeS/SAM binding site; other site 883009164 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 883009165 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 883009166 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883009167 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 883009168 motif II; other site 883009169 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 883009170 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 883009171 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 883009172 dimer interface [polypeptide binding]; other site 883009173 putative anticodon binding site; other site 883009174 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 883009175 motif 1; other site 883009176 active site 883009177 motif 2; other site 883009178 motif 3; other site 883009179 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 883009180 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 883009181 FtsX-like permease family; Region: FtsX; pfam02687 883009182 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 883009183 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 883009184 Walker A/P-loop; other site 883009185 ATP binding site [chemical binding]; other site 883009186 Q-loop/lid; other site 883009187 ABC transporter signature motif; other site 883009188 Walker B; other site 883009189 D-loop; other site 883009190 H-loop/switch region; other site 883009191 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 883009192 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 883009193 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 883009194 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 883009195 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 883009196 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 883009197 Surface antigen; Region: Bac_surface_Ag; cl03097 883009198 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 883009199 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 883009200 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 883009201 active site 883009202 metal binding site [ion binding]; metal-binding site 883009203 periplasmic chaperone; Provisional; Region: PRK10780 883009204 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 883009205 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 883009206 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 883009207 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 883009208 trimer interface [polypeptide binding]; other site 883009209 active site 883009210 UDP-GlcNAc binding site [chemical binding]; other site 883009211 lipid binding site [chemical binding]; lipid-binding site 883009212 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 883009213 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 883009214 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 883009215 active site 883009216 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 883009217 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 883009218 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 883009219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009220 homodimer interface [polypeptide binding]; other site 883009221 catalytic residue [active] 883009222 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 883009223 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 883009224 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 883009225 DNA-binding site [nucleotide binding]; DNA binding site 883009226 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 883009227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009228 homodimer interface [polypeptide binding]; other site 883009229 catalytic residue [active] 883009230 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 883009231 substrate binding site [chemical binding]; other site 883009232 multimerization interface [polypeptide binding]; other site 883009233 ATP binding site [chemical binding]; other site 883009234 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 883009235 thiamine phosphate binding site [chemical binding]; other site 883009236 active site 883009237 pyrophosphate binding site [ion binding]; other site 883009238 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 883009239 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 883009240 FAD binding pocket [chemical binding]; other site 883009241 FAD binding motif [chemical binding]; other site 883009242 phosphate binding motif [ion binding]; other site 883009243 beta-alpha-beta structure motif; other site 883009244 NAD binding pocket [chemical binding]; other site 883009245 GAF domain; Region: GAF; cl00853 883009246 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 883009247 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 883009248 Walker A motif; other site 883009249 ATP binding site [chemical binding]; other site 883009250 Walker B motif; other site 883009251 arginine finger; other site 883009252 HDOD domain; Region: HDOD; pfam08668 883009253 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883009254 CotH protein; Region: CotH; pfam08757 883009255 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 883009256 putative active site; other site 883009257 putative metal binding residues [ion binding]; other site 883009258 putative triphosphate binding site [ion binding]; other site 883009259 signature motif; other site 883009260 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 883009261 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 883009262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009263 homodimer interface [polypeptide binding]; other site 883009264 catalytic residue [active] 883009265 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 883009266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883009267 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 883009268 putative ADP-binding pocket [chemical binding]; other site 883009269 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 883009270 O-Antigen ligase; Region: Wzy_C; cl04850 883009271 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 883009272 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 883009273 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 883009274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883009275 active site 883009276 phosphorylation site [posttranslational modification] 883009277 intermolecular recognition site; other site 883009278 dimerization interface [polypeptide binding]; other site 883009279 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 883009280 Walker A motif; other site 883009281 ATP binding site [chemical binding]; other site 883009282 Walker B motif; other site 883009283 arginine finger; other site 883009284 Helix-turn-helix domains; Region: HTH; cl00088 883009285 aconitate hydratase; Validated; Region: PRK07229 883009286 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 883009287 substrate binding site [chemical binding]; other site 883009288 ligand binding site [chemical binding]; other site 883009289 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 883009290 substrate binding site [chemical binding]; other site 883009291 periplasmic folding chaperone; Provisional; Region: PRK10788 883009292 SurA N-terminal domain; Region: SurA_N; pfam09312 883009293 PPIC-type PPIASE domain; Region: Rotamase; cl08278 883009294 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 883009295 Nitrogen regulatory protein P-II; Region: P-II; cl00412 883009296 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 883009297 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 883009298 putative ligand binding site [chemical binding]; other site 883009299 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 883009300 TM-ABC transporter signature motif; other site 883009301 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 883009302 TM-ABC transporter signature motif; other site 883009303 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 883009304 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 883009305 Walker A/P-loop; other site 883009306 ATP binding site [chemical binding]; other site 883009307 Q-loop/lid; other site 883009308 ABC transporter signature motif; other site 883009309 Walker B; other site 883009310 D-loop; other site 883009311 H-loop/switch region; other site 883009312 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 883009313 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 883009314 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 883009315 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 883009316 conserved cys residue [active] 883009317 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 883009318 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 883009319 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 883009320 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 883009321 FAD binding site [chemical binding]; other site 883009322 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883009323 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 883009324 putative active site [active] 883009325 LysE type translocator; Region: LysE; cl00565 883009326 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 883009327 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 883009328 Helix-turn-helix domains; Region: HTH; cl00088 883009329 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 883009330 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 883009331 active site 883009332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883009333 Flagellin N-methylase; Region: FliB; cl00497 883009334 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 883009335 HSP70 interaction site [polypeptide binding]; other site 883009336 EamA-like transporter family; Region: EamA; cl01037 883009337 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 883009338 EamA-like transporter family; Region: EamA; cl01037 883009339 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 883009340 homotrimer interface [polypeptide binding]; other site 883009341 Walker A motif; other site 883009342 GTP binding site [chemical binding]; other site 883009343 Walker B motif; other site 883009344 Protein of unknown function (DUF554); Region: DUF554; cl00784 883009345 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 883009346 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 883009347 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 883009348 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 883009349 LabA_like proteins; Region: LabA_like; cd06167 883009350 putative metal binding site [ion binding]; other site 883009351 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 883009352 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 883009353 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 883009354 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 883009355 FeS/SAM binding site; other site 883009356 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 883009357 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; cl15691 883009358 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 883009359 DEAD-like helicases superfamily; Region: DEXDc; smart00487 883009360 ATP binding site [chemical binding]; other site 883009361 Mg++ binding site [ion binding]; other site 883009362 motif III; other site 883009363 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 883009364 nucleotide binding region [chemical binding]; other site 883009365 ATP-binding site [chemical binding]; other site 883009366 Protein of unknown function (DUF520); Region: DUF520; cl00723 883009367 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883009368 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883009369 ABC transporter ATPase component; Reviewed; Region: PRK11147 883009370 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883009371 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883009372 ABC transporter; Region: ABC_tran_2; pfam12848 883009373 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 883009374 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 883009375 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 883009376 oligomerisation interface [polypeptide binding]; other site 883009377 mobile loop; other site 883009378 roof hairpin; other site 883009379 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 883009380 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 883009381 ring oligomerisation interface [polypeptide binding]; other site 883009382 ATP/Mg binding site [chemical binding]; other site 883009383 stacking interactions; other site 883009384 hinge regions; other site 883009385 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 883009386 motif I; other site 883009387 motif II; other site 883009388 integral membrane protein MviN; Region: mviN; TIGR01695 883009389 PilZ domain; Region: PilZ; cl01260 883009390 Response regulator receiver domain; Region: Response_reg; pfam00072 883009391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883009392 active site 883009393 phosphorylation site [posttranslational modification] 883009394 intermolecular recognition site; other site 883009395 dimerization interface [polypeptide binding]; other site 883009396 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 883009397 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 883009398 Walker A motif; other site 883009399 ATP binding site [chemical binding]; other site 883009400 Walker B motif; other site 883009401 arginine finger; other site 883009402 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 883009403 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 883009404 sensory histidine kinase CreC; Provisional; Region: PRK11100 883009405 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 883009406 dimerization interface [polypeptide binding]; other site 883009407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 883009408 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883009409 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 883009410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 883009411 active site 883009412 phosphorylation site [posttranslational modification] 883009413 intermolecular recognition site; other site 883009414 dimerization interface [polypeptide binding]; other site 883009415 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 883009416 Zn2+ binding site [ion binding]; other site 883009417 Mg2+ binding site [ion binding]; other site 883009418 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 883009419 HDOD domain; Region: HDOD; pfam08668 883009420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 883009421 Colicin V production protein; Region: Colicin_V; cl00567 883009422 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 883009423 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 883009424 Domain of unknown function DUF20; Region: UPF0118; cl00465 883009425 PAS fold; Region: PAS; pfam00989 883009426 PAS domain S-box; Region: sensory_box; TIGR00229 883009427 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 883009428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883009429 metal binding site [ion binding]; metal-binding site 883009430 active site 883009431 I-site; other site 883009432 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 883009433 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 883009434 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 883009435 Walker A motif; other site 883009436 ATP binding site [chemical binding]; other site 883009437 Walker B motif; other site 883009438 arginine finger; other site 883009439 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 883009440 Acylphosphatase; Region: Acylphosphatase; cl00551 883009441 hypothetical protein; Reviewed; Region: PRK00024 883009442 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 883009443 MPN+ (JAMM) motif; other site 883009444 Zinc-binding site [ion binding]; other site 883009445 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 883009446 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 883009447 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 883009448 HIGH motif; other site 883009449 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 883009450 active site 883009451 KMSKS motif; other site 883009452 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 883009453 tRNA binding surface [nucleotide binding]; other site 883009454 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 883009455 putative RNA binding site [nucleotide binding]; other site 883009456 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 883009457 homopentamer interface [polypeptide binding]; other site 883009458 active site 883009459 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 883009460 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 883009461 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 883009462 dimerization interface [polypeptide binding]; other site 883009463 active site 883009464 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 883009465 Lumazine binding domain; Region: Lum_binding; pfam00677 883009466 Lumazine binding domain; Region: Lum_binding; pfam00677 883009467 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 883009468 catalytic motif [active] 883009469 Zn binding site [ion binding]; other site 883009470 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 883009471 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 883009472 catalytic motif [active] 883009473 Zn binding site [ion binding]; other site 883009474 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 883009475 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 883009476 dimer interface [polypeptide binding]; other site 883009477 glycine-pyridoxal phosphate binding site [chemical binding]; other site 883009478 active site 883009479 folate binding site [chemical binding]; other site 883009480 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 883009481 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 883009482 dimer interface [polypeptide binding]; other site 883009483 active site 883009484 Phosphopantetheine attachment site; Region: PP-binding; cl09936 883009485 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 883009486 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 883009487 NAD(P) binding site [chemical binding]; other site 883009488 homotetramer interface [polypeptide binding]; other site 883009489 homodimer interface [polypeptide binding]; other site 883009490 active site 883009491 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 883009492 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 883009493 dimer interface [polypeptide binding]; other site 883009494 active site 883009495 CoA binding pocket [chemical binding]; other site 883009496 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 883009497 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 883009498 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 883009499 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 883009500 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 883009501 Rhomboid family; Region: Rhomboid; cl11446 883009502 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 883009503 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 883009504 MatE; Region: MatE; cl10513 883009505 MatE; Region: MatE; cl10513 883009506 Domain of unknown function DUF77; Region: DUF77; cl00307 883009507 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 883009508 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 883009509 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 883009510 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 883009511 4Fe-4S binding domain; Region: Fer4; cl02805 883009512 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 883009513 putative FMN binding site [chemical binding]; other site 883009514 Cache domain; Region: Cache_1; pfam02743 883009515 PAS fold; Region: PAS; pfam00989 883009516 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 883009517 putative active site [active] 883009518 heme pocket [chemical binding]; other site 883009519 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883009520 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 883009521 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 883009522 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 883009523 YcaO-like family; Region: YcaO; cl09146 883009524 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 883009525 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 883009526 catalytic residues [active] 883009527 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 883009528 putative active site pocket [active] 883009529 4-fold oligomerization interface [polypeptide binding]; other site 883009530 metal binding residues [ion binding]; metal-binding site 883009531 3-fold/trimer interface [polypeptide binding]; other site 883009532 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 883009533 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 883009534 GMP synthase; Reviewed; Region: guaA; PRK00074 883009535 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 883009536 AMP/PPi binding site [chemical binding]; other site 883009537 candidate oxyanion hole; other site 883009538 catalytic triad [active] 883009539 potential glutamine specificity residues [chemical binding]; other site 883009540 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 883009541 ATP Binding subdomain [chemical binding]; other site 883009542 Ligand Binding sites [chemical binding]; other site 883009543 Dimerization subdomain; other site 883009544 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 883009545 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; cl09108 883009546 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 key...; Region: CBS_pair_IMPDH; cd04601 883009547 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 the guanine...; Region: IMPDH; cd00381 883009548 active site 883009549 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 883009550 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 883009551 binding surface 883009552 TPR motif; other site 883009553 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 883009554 CcmB protein; Region: CcmB; cl01016 883009555 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 883009556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883009557 Walker A/P-loop; other site 883009558 ATP binding site [chemical binding]; other site 883009559 ABC transporter signature motif; other site 883009560 Walker B; other site 883009561 D-loop; other site 883009562 H-loop/switch region; other site 883009563 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 883009564 CcmE; Region: CcmE; cl00994 883009565 Domain of unknown function DUF21; Region: DUF21; pfam01595 883009566 FOG: CBS domain [General function prediction only]; Region: COG0517 883009567 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 883009568 hypothetical protein; Validated; Region: PRK06769 883009569 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 883009570 active site 883009571 motif I; other site 883009572 motif II; other site 883009573 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 883009574 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 883009575 putative active site [active] 883009576 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 883009577 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 883009578 Walker A/P-loop; other site 883009579 ATP binding site [chemical binding]; other site 883009580 Q-loop/lid; other site 883009581 ABC transporter signature motif; other site 883009582 Walker B; other site 883009583 D-loop; other site 883009584 H-loop/switch region; other site 883009585 Cobalt transport protein; Region: CbiQ; cl00463 883009586 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 883009587 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 883009588 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; cl15357 883009589 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 883009590 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 883009591 Probable Catalytic site; other site 883009592 metal-binding site 883009593 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 883009594 active site 883009595 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 883009596 active site 883009597 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 883009598 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 883009599 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 883009600 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 883009601 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883009602 substrate binding pocket [chemical binding]; other site 883009603 membrane-bound complex binding site; other site 883009604 hinge residues; other site 883009605 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 883009606 putative homodimer interface [polypeptide binding]; other site 883009607 putative active site pocket [active] 883009608 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 883009609 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 883009610 trimer interface [polypeptide binding]; other site 883009611 active site 883009612 acetylornithine aminotransferase; Provisional; Region: PRK02627 883009613 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 883009614 inhibitor-cofactor binding pocket; inhibition site 883009615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 883009616 catalytic residue [active] 883009617 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 883009618 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 883009619 Walker A/P-loop; other site 883009620 ATP binding site [chemical binding]; other site 883009621 Q-loop/lid; other site 883009622 ABC transporter signature motif; other site 883009623 Walker B; other site 883009624 D-loop; other site 883009625 H-loop/switch region; other site 883009626 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 883009627 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 883009628 substrate binding pocket [chemical binding]; other site 883009629 membrane-bound complex binding site; other site 883009630 hinge residues; other site 883009631 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 883009632 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 883009633 dimer interface [polypeptide binding]; other site 883009634 conserved gate region; other site 883009635 putative PBP binding loops; other site 883009636 ABC-ATPase subunit interface; other site 883009637 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 883009638 dimer interface [polypeptide binding]; other site 883009639 conserved gate region; other site 883009640 putative PBP binding loops; other site 883009641 ABC-ATPase subunit interface; other site 883009642 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 883009643 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 883009644 S-adenosylmethionine binding site [chemical binding]; other site 883009645 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 883009646 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 883009647 minor groove reading motif; other site 883009648 helix-hairpin-helix signature motif; other site 883009649 substrate binding pocket [chemical binding]; other site 883009650 active site 883009651 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 883009652 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 883009653 Peptidase family M23; Region: Peptidase_M23; pfam01551 883009654 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 883009655 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 883009656 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 883009657 protein binding site [polypeptide binding]; other site 883009658 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 883009659 Catalytic dyad [active] 883009660 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 883009661 NodB motif; other site 883009662 putative active site [active] 883009663 putative catalytic site [active] 883009664 Zn binding site [ion binding]; other site 883009665 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 883009666 active site 883009667 multimer interface [polypeptide binding]; other site 883009668 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 883009669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 883009670 Smr domain; Region: Smr; cl02619 883009671 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 883009672 tandem repeat interface [polypeptide binding]; other site 883009673 oligomer interface [polypeptide binding]; other site 883009674 active site residues [active] 883009675 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 883009676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 883009677 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; cl00418 883009678 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 883009679 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 883009680 TPR motif; other site 883009681 binding surface 883009682 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 883009683 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 883009684 metal-binding site [ion binding] 883009685 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 883009686 metal-binding site [ion binding] 883009687 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 883009688 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 883009689 metal-binding site [ion binding] 883009690 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 883009691 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 883009692 motif II; other site 883009693 Eukaryotic UGPase catalyses the synthesis of UDP-Glucose; Region: UGPase_euk; cd00897 883009694 active site 883009695 substrate binding site; other site 883009696 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 883009697 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 883009698 DNA binding site [nucleotide binding] 883009699 Rubrerythrin [Energy production and conversion]; Region: COG1592 883009700 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 883009701 binuclear metal center [ion binding]; other site 883009702 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 883009703 iron binding site [ion binding]; other site 883009704 DNA topoisomerase III; Provisional; Region: PRK07726 883009705 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 883009706 active site 883009707 putative interdomain interaction site [polypeptide binding]; other site 883009708 putative metal-binding site [ion binding]; other site 883009709 putative nucleotide binding site [chemical binding]; other site 883009710 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; cl11986 883009711 domain I; other site 883009712 phosphate binding site [ion binding]; other site 883009713 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 883009714 domain II; other site 883009715 domain III; other site 883009716 nucleotide binding site [chemical binding]; other site 883009717 DNA binding groove [nucleotide binding] 883009718 catalytic site [active] 883009719 domain IV; other site 883009720 DNA topoisomerase III; Validated; Region: PRK08173 883009721 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 883009722 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 883009723 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 883009724 putative active site [active] 883009725 OsmC-like protein; Region: OsmC; cl00767 883009726 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 883009727 Cache domain; Region: Cache_1; pfam02743 883009728 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 883009729 Domain of unknown function (DUF386); Region: DUF386; cl01047 883009730 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 883009731 Cupin domain; Region: Cupin_2; cl09118 883009732 Phosphate transporter family; Region: PHO4; cl00396 883009733 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 883009734 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 883009735 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 883009736 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; cl00418 883009737 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 883009738 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 883009739 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 883009740 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 883009741 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 883009742 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 883009743 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 883009744 NADH dehydrogenase; Region: NADHdh; cl00469 883009745 NADH dehydrogenase subunit 5; Region: ndhF; CHL00025 883009746 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883009747 hydrogenase 4 subunit D; Validated; Region: PRK06525 883009748 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 883009749 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 883009750 DsrE/DsrF-like family; Region: DrsE; cl00672 883009751 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 883009752 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 883009753 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 883009754 S-adenosylmethionine binding site [chemical binding]; other site 883009755 Domain of unknown function DUF28; Region: DUF28; cl00361 883009756 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 883009757 active site 883009758 putative DNA-binding cleft [nucleotide binding]; other site 883009759 dimer interface [polypeptide binding]; other site 883009760 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 883009761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 883009762 metal binding site [ion binding]; metal-binding site 883009763 active site 883009764 I-site; other site 883009765 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 883009766 RuvA N terminal domain; Region: RuvA_N; pfam01330 883009767 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 883009768 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 883009769 Walker A motif; other site 883009770 ATP binding site [chemical binding]; other site 883009771 Walker B motif; other site 883009772 arginine finger; other site 883009773 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 883009774 Thymidylate synthase complementing protein; Region: Thy1; cl03630