-- dump date 20140620_025348 -- class Genbank::misc_feature -- table misc_feature_note -- id note 557760000001 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760000002 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760000003 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557760000004 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 557760000005 putative DNA binding site [nucleotide binding]; other site 557760000006 putative Zn2+ binding site [ion binding]; other site 557760000007 Bacterial transcriptional regulator; Region: IclR; pfam01614 557760000008 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 557760000009 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 557760000010 molybdopterin cofactor binding site [chemical binding]; other site 557760000011 substrate binding site [chemical binding]; other site 557760000012 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 557760000013 molybdopterin cofactor binding site; other site 557760000014 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760000015 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760000016 DNA-binding site [nucleotide binding]; DNA binding site 557760000017 FCD domain; Region: FCD; pfam07729 557760000018 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 557760000019 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557760000020 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557760000021 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 557760000022 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760000023 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 557760000024 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 557760000025 DctM-like transporters; Region: DctM; pfam06808 557760000026 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 557760000027 B12 binding site [chemical binding]; other site 557760000028 cobalt ligand [ion binding]; other site 557760000029 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 557760000030 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760000031 acyl-activating enzyme (AAE) consensus motif; other site 557760000032 AMP binding site [chemical binding]; other site 557760000033 active site 557760000034 CoA binding site [chemical binding]; other site 557760000035 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 557760000036 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 557760000037 Walker A; other site 557760000038 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 557760000039 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 557760000040 trimer interface [polypeptide binding]; other site 557760000041 putative metal binding site [ion binding]; other site 557760000042 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 557760000043 trimer interface [polypeptide binding]; other site 557760000044 putative metal binding site [ion binding]; other site 557760000045 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 557760000046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760000047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760000048 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 557760000049 EamA-like transporter family; Region: EamA; pfam00892 557760000050 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557760000051 EamA-like transporter family; Region: EamA; pfam00892 557760000052 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 557760000053 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 557760000054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760000055 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 557760000056 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760000057 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760000058 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760000059 Walker A/P-loop; other site 557760000060 ATP binding site [chemical binding]; other site 557760000061 Q-loop/lid; other site 557760000062 ABC transporter signature motif; other site 557760000063 Walker B; other site 557760000064 D-loop; other site 557760000065 H-loop/switch region; other site 557760000066 NMT1/THI5 like; Region: NMT1; pfam09084 557760000067 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 557760000068 4-coumarate--CoA ligase, photoactive yellow protein activation family; Region: 4_coum_CoA_lig; TIGR02372 557760000069 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760000070 active site 557760000071 CoA binding site [chemical binding]; other site 557760000072 AMP binding site [chemical binding]; other site 557760000073 photoactive yellow protein; Region: photo_yellow; TIGR02373 557760000074 Predicted membrane protein [Function unknown]; Region: COG2259 557760000075 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 557760000076 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 557760000077 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 557760000078 putative dimer interface [polypeptide binding]; other site 557760000079 N-terminal domain interface [polypeptide binding]; other site 557760000080 putative substrate binding pocket (H-site) [chemical binding]; other site 557760000081 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 557760000082 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 557760000083 putative active site [active] 557760000084 metal binding site [ion binding]; metal-binding site 557760000085 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 557760000086 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557760000087 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760000088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760000089 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557760000090 putative effector binding pocket; other site 557760000091 dimerization interface [polypeptide binding]; other site 557760000092 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 557760000093 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 557760000094 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 557760000095 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557760000096 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760000097 GTPase CgtA; Reviewed; Region: obgE; PRK12299 557760000098 GTP1/OBG; Region: GTP1_OBG; pfam01018 557760000099 Obg GTPase; Region: Obg; cd01898 557760000100 G1 box; other site 557760000101 GTP/Mg2+ binding site [chemical binding]; other site 557760000102 Switch I region; other site 557760000103 G2 box; other site 557760000104 G3 box; other site 557760000105 Switch II region; other site 557760000106 G4 box; other site 557760000107 G5 box; other site 557760000108 gamma-glutamyl kinase; Provisional; Region: PRK05429 557760000109 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 557760000110 nucleotide binding site [chemical binding]; other site 557760000111 homotetrameric interface [polypeptide binding]; other site 557760000112 putative phosphate binding site [ion binding]; other site 557760000113 putative allosteric binding site; other site 557760000114 PUA domain; Region: PUA; pfam01472 557760000115 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 557760000116 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 557760000117 putative catalytic cysteine [active] 557760000118 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 557760000119 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 557760000120 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557760000121 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557760000122 putative acyl-acceptor binding pocket; other site 557760000123 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 557760000124 thiamine phosphate binding site [chemical binding]; other site 557760000125 active site 557760000126 pyrophosphate binding site [ion binding]; other site 557760000127 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 557760000128 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 557760000129 EthD domain; Region: EthD; cl17553 557760000130 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 557760000131 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 557760000132 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 557760000133 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 557760000134 active site 557760000135 Zn binding site [ion binding]; other site 557760000136 enoyl-CoA hydratase; Validated; Region: PRK08139 557760000137 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760000138 substrate binding site [chemical binding]; other site 557760000139 oxyanion hole (OAH) forming residues; other site 557760000140 trimer interface [polypeptide binding]; other site 557760000141 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 557760000142 CoenzymeA binding site [chemical binding]; other site 557760000143 subunit interaction site [polypeptide binding]; other site 557760000144 PHB binding site; other site 557760000145 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 557760000146 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 557760000147 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 557760000148 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 557760000149 active site 557760000150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760000151 Transposase; Region: HTH_Tnp_1; cl17663 557760000152 putative transposase OrfB; Reviewed; Region: PHA02517 557760000153 HTH-like domain; Region: HTH_21; pfam13276 557760000154 Integrase core domain; Region: rve; pfam00665 557760000155 Integrase core domain; Region: rve_3; pfam13683 557760000156 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 557760000157 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 557760000158 substrate-cofactor binding pocket; other site 557760000159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760000160 catalytic residue [active] 557760000161 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 557760000162 4Fe-4S binding domain; Region: Fer4_5; pfam12801 557760000163 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 557760000164 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 557760000165 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 557760000166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760000167 DNA-binding site [nucleotide binding]; DNA binding site 557760000168 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 557760000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760000170 homodimer interface [polypeptide binding]; other site 557760000171 catalytic residue [active] 557760000172 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760000173 Transposase; Region: HTH_Tnp_1; cl17663 557760000174 HTH-like domain; Region: HTH_21; pfam13276 557760000175 Transposase domain (DUF772); Region: DUF772; pfam05598 557760000176 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760000177 classical (c) SDRs; Region: SDR_c; cd05233 557760000178 NAD(P) binding site [chemical binding]; other site 557760000179 active site 557760000180 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760000181 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 557760000182 dimer interface [polypeptide binding]; other site 557760000183 conserved gate region; other site 557760000184 putative PBP binding loops; other site 557760000185 ABC-ATPase subunit interface; other site 557760000186 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 557760000187 dimer interface [polypeptide binding]; other site 557760000188 conserved gate region; other site 557760000189 putative PBP binding loops; other site 557760000190 ABC-ATPase subunit interface; other site 557760000191 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760000192 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760000193 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760000194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760000195 Walker A/P-loop; other site 557760000196 ATP binding site [chemical binding]; other site 557760000197 Q-loop/lid; other site 557760000198 ABC transporter signature motif; other site 557760000199 Walker B; other site 557760000200 D-loop; other site 557760000201 H-loop/switch region; other site 557760000202 TOBE domain; Region: TOBE_2; pfam08402 557760000203 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760000204 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 557760000205 DNA binding residues [nucleotide binding] 557760000206 dimerization interface [polypeptide binding]; other site 557760000207 hypothetical protein; Provisional; Region: PRK09897 557760000208 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 557760000209 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557760000210 Beta-lactamase; Region: Beta-lactamase; pfam00144 557760000211 Tannase and feruloyl esterase; Region: Tannase; pfam07519 557760000212 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557760000213 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 557760000214 putative active site [active] 557760000215 catalytic residue [active] 557760000216 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557760000217 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557760000218 dimer interface [polypeptide binding]; other site 557760000219 NADP binding site [chemical binding]; other site 557760000220 catalytic residues [active] 557760000221 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 557760000222 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 557760000223 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557760000224 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 557760000225 active site 557760000226 catalytic triad [active] 557760000227 dimer interface [polypeptide binding]; other site 557760000228 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760000229 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760000230 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760000231 DctM-like transporters; Region: DctM; pfam06808 557760000232 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557760000233 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760000234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760000235 DNA-binding site [nucleotide binding]; DNA binding site 557760000236 FCD domain; Region: FCD; pfam07729 557760000237 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 557760000238 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 557760000239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760000240 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557760000241 NAD(P) binding site [chemical binding]; other site 557760000242 active site 557760000243 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760000244 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760000245 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 557760000246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760000247 DNA-binding site [nucleotide binding]; DNA binding site 557760000248 FCD domain; Region: FCD; pfam07729 557760000249 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 557760000250 RNA polymerase sigma factor; Provisional; Region: PRK12537 557760000251 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760000252 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 557760000253 DNA binding residues [nucleotide binding] 557760000254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 557760000255 Anti-sigma-K factor rskA; Region: RskA; pfam10099 557760000256 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760000257 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760000258 DNA-binding site [nucleotide binding]; DNA binding site 557760000259 FCD domain; Region: FCD; pfam07729 557760000260 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760000261 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 557760000262 dimer interface [polypeptide binding]; other site 557760000263 conserved gate region; other site 557760000264 putative PBP binding loops; other site 557760000265 ABC-ATPase subunit interface; other site 557760000266 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 557760000267 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 557760000268 putative PBP binding loops; other site 557760000269 dimer interface [polypeptide binding]; other site 557760000270 ABC-ATPase subunit interface; other site 557760000271 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000272 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 557760000273 Walker A/P-loop; other site 557760000274 ATP binding site [chemical binding]; other site 557760000275 Q-loop/lid; other site 557760000276 ABC transporter signature motif; other site 557760000277 Walker B; other site 557760000278 D-loop; other site 557760000279 H-loop/switch region; other site 557760000280 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 557760000281 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 557760000282 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000283 Walker A/P-loop; other site 557760000284 ATP binding site [chemical binding]; other site 557760000285 Q-loop/lid; other site 557760000286 ABC transporter signature motif; other site 557760000287 Walker B; other site 557760000288 D-loop; other site 557760000289 H-loop/switch region; other site 557760000290 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760000291 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_1; cd08508 557760000292 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557760000293 H+ Antiporter protein; Region: 2A0121; TIGR00900 557760000294 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 557760000295 putative substrate translocation pore; other site 557760000296 Predicted acyl esterases [General function prediction only]; Region: COG2936 557760000297 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557760000298 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 557760000299 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557760000300 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760000301 dimer interface [polypeptide binding]; other site 557760000302 phosphorylation site [posttranslational modification] 557760000303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760000304 ATP binding site [chemical binding]; other site 557760000305 Mg2+ binding site [ion binding]; other site 557760000306 G-X-G motif; other site 557760000307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760000308 Response regulator receiver domain; Region: Response_reg; pfam00072 557760000309 active site 557760000310 phosphorylation site [posttranslational modification] 557760000311 intermolecular recognition site; other site 557760000312 dimerization interface [polypeptide binding]; other site 557760000313 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 557760000314 putative binding surface; other site 557760000315 active site 557760000316 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 557760000317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760000318 active site 557760000319 phosphorylation site [posttranslational modification] 557760000320 intermolecular recognition site; other site 557760000321 dimerization interface [polypeptide binding]; other site 557760000322 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 557760000323 DNA binding site [nucleotide binding] 557760000324 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 557760000325 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 557760000326 cytochrome c-550; Provisional; Region: psbV; cl17239 557760000327 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 557760000328 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 557760000329 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 557760000330 molybdopterin cofactor binding site [chemical binding]; other site 557760000331 substrate binding site [chemical binding]; other site 557760000332 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 557760000333 molybdopterin cofactor binding site; other site 557760000334 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 557760000335 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 557760000336 dimer interface [polypeptide binding]; other site 557760000337 putative functional site; other site 557760000338 putative MPT binding site; other site 557760000339 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 557760000340 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 557760000341 FeS/SAM binding site; other site 557760000342 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 557760000343 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 557760000344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760000345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760000346 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 557760000347 dimerization interface [polypeptide binding]; other site 557760000348 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 557760000349 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760000350 Zn binding site [ion binding]; other site 557760000351 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 557760000352 Zn binding site [ion binding]; other site 557760000353 putative hydrolase; Provisional; Region: PRK11460 557760000354 Predicted esterase [General function prediction only]; Region: COG0400 557760000355 Bacterial SH3 domain; Region: SH3_3; pfam08239 557760000356 MarR family; Region: MarR_2; cl17246 557760000357 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 557760000358 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760000359 N-terminal plug; other site 557760000360 ligand-binding site [chemical binding]; other site 557760000361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760000362 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 557760000363 Walker A/P-loop; other site 557760000364 ATP binding site [chemical binding]; other site 557760000365 Q-loop/lid; other site 557760000366 ABC transporter signature motif; other site 557760000367 Walker B; other site 557760000368 D-loop; other site 557760000369 H-loop/switch region; other site 557760000370 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 557760000371 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 557760000372 dimer interface [polypeptide binding]; other site 557760000373 conserved gate region; other site 557760000374 ABC-ATPase subunit interface; other site 557760000375 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557760000376 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 557760000377 serine O-acetyltransferase; Region: cysE; TIGR01172 557760000378 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 557760000379 trimer interface [polypeptide binding]; other site 557760000380 active site 557760000381 substrate binding site [chemical binding]; other site 557760000382 CoA binding site [chemical binding]; other site 557760000383 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557760000384 classical (c) SDRs; Region: SDR_c; cd05233 557760000385 NAD(P) binding site [chemical binding]; other site 557760000386 active site 557760000387 AMP-binding enzyme; Region: AMP-binding; pfam00501 557760000388 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760000389 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760000390 acyl-activating enzyme (AAE) consensus motif; other site 557760000391 acyl-activating enzyme (AAE) consensus motif; other site 557760000392 active site 557760000393 AMP binding site [chemical binding]; other site 557760000394 CoA binding site [chemical binding]; other site 557760000395 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557760000396 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 557760000397 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557760000398 Predicted periplasmic protein [Function unknown]; Region: COG3904 557760000399 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557760000400 Predicted flavoprotein [General function prediction only]; Region: COG0431 557760000401 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 557760000402 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 557760000403 MOFRL family; Region: MOFRL; pfam05161 557760000404 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 557760000405 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760000406 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 557760000407 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 557760000408 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 557760000409 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 557760000410 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 557760000411 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 557760000412 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 557760000413 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 557760000414 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 557760000415 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557760000416 putative ligand binding residues [chemical binding]; other site 557760000417 BCCT family transporter; Region: BCCT; pfam02028 557760000418 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 557760000419 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 557760000420 FeS/SAM binding site; other site 557760000421 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 557760000422 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557760000423 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760000424 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 557760000425 Walker A/P-loop; other site 557760000426 ATP binding site [chemical binding]; other site 557760000427 Q-loop/lid; other site 557760000428 ABC transporter signature motif; other site 557760000429 Walker B; other site 557760000430 D-loop; other site 557760000431 H-loop/switch region; other site 557760000432 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 557760000433 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557760000434 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 557760000435 dimerization interface [polypeptide binding]; other site 557760000436 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557760000437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760000438 dimer interface [polypeptide binding]; other site 557760000439 putative CheW interface [polypeptide binding]; other site 557760000440 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 557760000441 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 557760000442 Sulfatase; Region: Sulfatase; pfam00884 557760000443 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 557760000444 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557760000445 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 557760000446 dimer interface [polypeptide binding]; other site 557760000447 phosphorylation site [posttranslational modification] 557760000448 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760000449 Mg2+ binding site [ion binding]; other site 557760000450 G-X-G motif; other site 557760000451 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760000452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760000453 active site 557760000454 phosphorylation site [posttranslational modification] 557760000455 intermolecular recognition site; other site 557760000456 dimerization interface [polypeptide binding]; other site 557760000457 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 557760000458 DNA binding site [nucleotide binding] 557760000459 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557760000460 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 557760000461 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 557760000462 PhnA protein; Region: PhnA; pfam03831 557760000463 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 557760000464 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 557760000465 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557760000466 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 557760000467 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 557760000468 RNA polymerase sigma factor; Provisional; Region: PRK12511 557760000469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760000470 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 557760000471 DNA binding residues [nucleotide binding] 557760000472 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 557760000473 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 557760000474 D-pathway; other site 557760000475 Putative ubiquinol binding site [chemical binding]; other site 557760000476 Low-spin heme (heme b) binding site [chemical binding]; other site 557760000477 Putative water exit pathway; other site 557760000478 Binuclear center (heme o3/CuB) [ion binding]; other site 557760000479 K-pathway; other site 557760000480 Putative proton exit pathway; other site 557760000481 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 557760000482 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557760000483 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 557760000484 CHASE4 domain; Region: CHASE4; pfam05228 557760000485 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760000486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760000487 metal binding site [ion binding]; metal-binding site 557760000488 active site 557760000489 I-site; other site 557760000490 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 557760000491 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 557760000492 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 557760000493 putative hydrophobic ligand binding site [chemical binding]; other site 557760000494 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 557760000495 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557760000496 NAD binding site [chemical binding]; other site 557760000497 catalytic Zn binding site [ion binding]; other site 557760000498 structural Zn binding site [ion binding]; other site 557760000499 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760000500 putative active site [active] 557760000501 heme pocket [chemical binding]; other site 557760000502 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 557760000503 PAS domain S-box; Region: sensory_box; TIGR00229 557760000504 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760000505 PAS fold; Region: PAS_3; pfam08447 557760000506 putative active site [active] 557760000507 heme pocket [chemical binding]; other site 557760000508 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760000509 HWE histidine kinase; Region: HWE_HK; pfam07536 557760000510 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557760000511 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 557760000512 putative metal binding site [ion binding]; other site 557760000513 putative homodimer interface [polypeptide binding]; other site 557760000514 putative homotetramer interface [polypeptide binding]; other site 557760000515 putative homodimer-homodimer interface [polypeptide binding]; other site 557760000516 putative allosteric switch controlling residues; other site 557760000517 HAMP domain; Region: HAMP; pfam00672 557760000518 dimerization interface [polypeptide binding]; other site 557760000519 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760000520 dimer interface [polypeptide binding]; other site 557760000521 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 557760000522 putative CheW interface [polypeptide binding]; other site 557760000523 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557760000524 MarR family; Region: MarR_2; pfam12802 557760000525 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760000526 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 557760000527 C-terminal domain interface [polypeptide binding]; other site 557760000528 GSH binding site (G-site) [chemical binding]; other site 557760000529 dimer interface [polypeptide binding]; other site 557760000530 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 557760000531 N-terminal domain interface [polypeptide binding]; other site 557760000532 dimer interface [polypeptide binding]; other site 557760000533 substrate binding pocket (H-site) [chemical binding]; other site 557760000534 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 557760000535 putative C-terminal domain interface [polypeptide binding]; other site 557760000536 putative GSH binding site (G-site) [chemical binding]; other site 557760000537 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760000538 putative dimer interface [polypeptide binding]; other site 557760000539 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 557760000540 dimer interface [polypeptide binding]; other site 557760000541 N-terminal domain interface [polypeptide binding]; other site 557760000542 putative substrate binding pocket (H-site) [chemical binding]; other site 557760000543 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 557760000544 dimer interface [polypeptide binding]; other site 557760000545 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 557760000546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760000547 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557760000548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 557760000549 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 557760000550 Predicted membrane protein [Function unknown]; Region: COG2261 557760000551 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557760000552 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557760000553 YodA lipocalin-like domain; Region: YodA; pfam09223 557760000554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 557760000555 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 557760000556 Serine hydrolase; Region: Ser_hydrolase; pfam06821 557760000557 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557760000558 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 557760000559 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 557760000560 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 557760000561 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 557760000562 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760000563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760000564 active site 557760000565 phosphorylation site [posttranslational modification] 557760000566 intermolecular recognition site; other site 557760000567 dimerization interface [polypeptide binding]; other site 557760000568 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 557760000569 DNA binding residues [nucleotide binding] 557760000570 dimerization interface [polypeptide binding]; other site 557760000571 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 557760000572 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 557760000573 Protein of unknown function, DUF485; Region: DUF485; pfam04341 557760000574 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557760000575 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 557760000576 Na binding site [ion binding]; other site 557760000577 NIPSNAP; Region: NIPSNAP; pfam07978 557760000578 Predicted membrane protein [Function unknown]; Region: COG2855 557760000579 Fumarase C-terminus; Region: Fumerase_C; cl00795 557760000580 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 557760000581 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 557760000582 L-aspartate oxidase; Provisional; Region: PRK06175 557760000583 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557760000584 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 557760000585 Iron-sulfur protein interface; other site 557760000586 proximal heme binding site [chemical binding]; other site 557760000587 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 557760000588 Iron-sulfur protein interface; other site 557760000589 proximal heme binding site [chemical binding]; other site 557760000590 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 557760000591 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 557760000592 NMT1-like family; Region: NMT1_2; pfam13379 557760000593 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557760000594 NMT1-like family; Region: NMT1_2; pfam13379 557760000595 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 557760000596 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760000597 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 557760000598 ABC-ATPase subunit interface; other site 557760000599 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760000600 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760000601 Walker A/P-loop; other site 557760000602 ATP binding site [chemical binding]; other site 557760000603 Q-loop/lid; other site 557760000604 ABC transporter signature motif; other site 557760000605 Walker B; other site 557760000606 D-loop; other site 557760000607 H-loop/switch region; other site 557760000608 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 557760000609 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557760000610 PYR/PP interface [polypeptide binding]; other site 557760000611 dimer interface [polypeptide binding]; other site 557760000612 TPP binding site [chemical binding]; other site 557760000613 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557760000614 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 557760000615 TPP-binding site [chemical binding]; other site 557760000616 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760000617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760000618 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 557760000619 putative dimerization interface [polypeptide binding]; other site 557760000620 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557760000621 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557760000622 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557760000623 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557760000624 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557760000625 Walker A/P-loop; other site 557760000626 ATP binding site [chemical binding]; other site 557760000627 Q-loop/lid; other site 557760000628 ABC transporter signature motif; other site 557760000629 Walker B; other site 557760000630 D-loop; other site 557760000631 H-loop/switch region; other site 557760000632 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557760000633 Walker A/P-loop; other site 557760000634 ATP binding site [chemical binding]; other site 557760000635 Q-loop/lid; other site 557760000636 ABC transporter signature motif; other site 557760000637 Walker B; other site 557760000638 D-loop; other site 557760000639 H-loop/switch region; other site 557760000640 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557760000641 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 557760000642 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557760000643 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 557760000644 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760000645 Predicted integral membrane protein [Function unknown]; Region: COG0392 557760000646 Uncharacterized conserved protein [Function unknown]; Region: COG2898 557760000647 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 557760000648 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557760000649 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557760000650 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557760000651 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557760000652 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557760000653 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557760000654 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557760000655 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557760000656 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 557760000657 catalytic loop [active] 557760000658 iron binding site [ion binding]; other site 557760000659 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557760000660 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760000661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760000662 DNA-binding site [nucleotide binding]; DNA binding site 557760000663 FCD domain; Region: FCD; pfam07729 557760000664 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760000665 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 557760000666 dimer interface [polypeptide binding]; other site 557760000667 conserved gate region; other site 557760000668 ABC-ATPase subunit interface; other site 557760000669 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760000670 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760000671 Walker A/P-loop; other site 557760000672 ATP binding site [chemical binding]; other site 557760000673 Q-loop/lid; other site 557760000674 ABC transporter signature motif; other site 557760000675 Walker B; other site 557760000676 D-loop; other site 557760000677 H-loop/switch region; other site 557760000678 NMT1/THI5 like; Region: NMT1; pfam09084 557760000679 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 557760000680 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557760000681 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 557760000682 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 557760000683 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 557760000684 NAD binding site [chemical binding]; other site 557760000685 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557760000686 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 557760000687 Na binding site [ion binding]; other site 557760000688 substrate binding site [chemical binding]; other site 557760000689 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_24; cd09012 557760000690 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760000691 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 557760000692 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557760000693 NAD binding site [chemical binding]; other site 557760000694 homotetramer interface [polypeptide binding]; other site 557760000695 homodimer interface [polypeptide binding]; other site 557760000696 substrate binding site [chemical binding]; other site 557760000697 active site 557760000698 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 557760000699 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 557760000700 dimer interface [polypeptide binding]; other site 557760000701 active site 557760000702 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 557760000703 active site 1 [active] 557760000704 dimer interface [polypeptide binding]; other site 557760000705 active site 2 [active] 557760000706 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557760000707 metal binding site 2 [ion binding]; metal-binding site 557760000708 putative DNA binding helix; other site 557760000709 metal binding site 1 [ion binding]; metal-binding site 557760000710 dimer interface [polypeptide binding]; other site 557760000711 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557760000712 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557760000713 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557760000714 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557760000715 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557760000716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760000717 active site 557760000718 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760000719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760000720 NAD(P) binding site [chemical binding]; other site 557760000721 active site 557760000722 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 557760000723 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 557760000724 dimer interface [polypeptide binding]; other site 557760000725 active site 557760000726 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 557760000727 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 557760000728 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 557760000729 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 557760000730 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 557760000731 ApbE family; Region: ApbE; pfam02424 557760000732 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 557760000733 hypothetical protein; Provisional; Region: PRK13795 557760000734 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 557760000735 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557760000736 catalytic loop [active] 557760000737 iron binding site [ion binding]; other site 557760000738 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 557760000739 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557760000740 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557760000741 electron transport complex protein RsxA; Provisional; Region: PRK05151 557760000742 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 557760000743 Putative Fe-S cluster; Region: FeS; pfam04060 557760000744 4Fe-4S binding domain; Region: Fer4; pfam00037 557760000745 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 557760000746 SLBB domain; Region: SLBB; pfam10531 557760000747 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 557760000748 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 557760000749 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 557760000750 electron transport complex RsxE subunit; Provisional; Region: PRK12405 557760000751 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 557760000752 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 557760000753 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 557760000754 nucleotide binding site [chemical binding]; other site 557760000755 putative NEF/HSP70 interaction site [polypeptide binding]; other site 557760000756 SBD interface [polypeptide binding]; other site 557760000757 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 557760000758 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557760000759 active site 557760000760 catalytic tetrad [active] 557760000761 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 557760000762 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557760000763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760000764 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557760000765 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 557760000766 conserved cys residue [active] 557760000767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760000768 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557760000769 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 557760000770 catalytic loop [active] 557760000771 iron binding site [ion binding]; other site 557760000772 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557760000773 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 557760000774 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 557760000775 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557760000776 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557760000777 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557760000778 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 557760000779 cobalt transport protein CbiM; Validated; Region: PRK06265 557760000780 Cobalt transport protein; Region: CbiQ; cl00463 557760000781 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557760000782 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 557760000783 Walker A/P-loop; other site 557760000784 ATP binding site [chemical binding]; other site 557760000785 Q-loop/lid; other site 557760000786 ABC transporter signature motif; other site 557760000787 Walker B; other site 557760000788 D-loop; other site 557760000789 H-loop/switch region; other site 557760000790 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557760000791 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 557760000792 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 557760000793 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557760000794 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 557760000795 AAA domain; Region: AAA_23; pfam13476 557760000796 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557760000797 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557760000798 active site 557760000799 metal binding site [ion binding]; metal-binding site 557760000800 DNA binding site [nucleotide binding] 557760000801 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 557760000802 putative FMN binding site [chemical binding]; other site 557760000803 Cache domain; Region: Cache_1; pfam02743 557760000804 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760000805 dimer interface [polypeptide binding]; other site 557760000806 phosphorylation site [posttranslational modification] 557760000807 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 557760000808 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760000809 ATP binding site [chemical binding]; other site 557760000810 Mg2+ binding site [ion binding]; other site 557760000811 G-X-G motif; other site 557760000812 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557760000813 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557760000814 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 557760000815 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557760000816 Walker A/P-loop; other site 557760000817 ATP binding site [chemical binding]; other site 557760000818 Q-loop/lid; other site 557760000819 ABC transporter signature motif; other site 557760000820 Walker B; other site 557760000821 D-loop; other site 557760000822 H-loop/switch region; other site 557760000823 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 557760000824 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760000825 N-terminal plug; other site 557760000826 ligand-binding site [chemical binding]; other site 557760000827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760000828 Histidine kinase; Region: HisKA_2; pfam07568 557760000829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760000830 ATP binding site [chemical binding]; other site 557760000831 Mg2+ binding site [ion binding]; other site 557760000832 G-X-G motif; other site 557760000833 NAD-dependent deacetylase; Provisional; Region: PRK00481 557760000834 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 557760000835 NAD+ binding site [chemical binding]; other site 557760000836 substrate binding site [chemical binding]; other site 557760000837 Zn binding site [ion binding]; other site 557760000838 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 557760000839 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 557760000840 FeS/SAM binding site; other site 557760000841 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 557760000842 Cupin domain; Region: Cupin_2; cl17218 557760000843 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557760000844 murein hydrolase B; Provisional; Region: PRK10760; cl17906 557760000845 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760000846 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 557760000847 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557760000848 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557760000849 peptide binding site [polypeptide binding]; other site 557760000850 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760000851 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 557760000852 dimer interface [polypeptide binding]; other site 557760000853 conserved gate region; other site 557760000854 putative PBP binding loops; other site 557760000855 ABC-ATPase subunit interface; other site 557760000856 dipeptide transporter; Provisional; Region: PRK10913 557760000857 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 557760000858 dimer interface [polypeptide binding]; other site 557760000859 conserved gate region; other site 557760000860 putative PBP binding loops; other site 557760000861 ABC-ATPase subunit interface; other site 557760000862 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 557760000863 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000864 Walker A/P-loop; other site 557760000865 ATP binding site [chemical binding]; other site 557760000866 Q-loop/lid; other site 557760000867 ABC transporter signature motif; other site 557760000868 Walker B; other site 557760000869 D-loop; other site 557760000870 H-loop/switch region; other site 557760000871 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 557760000872 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 557760000873 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000874 Walker A/P-loop; other site 557760000875 ATP binding site [chemical binding]; other site 557760000876 Q-loop/lid; other site 557760000877 ABC transporter signature motif; other site 557760000878 Walker B; other site 557760000879 D-loop; other site 557760000880 H-loop/switch region; other site 557760000881 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760000882 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760000883 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557760000884 dimer interface [polypeptide binding]; other site 557760000885 active site 557760000886 metal binding site [ion binding]; metal-binding site 557760000887 glutathione binding site [chemical binding]; other site 557760000888 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 557760000889 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 557760000890 dimerization interface [polypeptide binding]; other site 557760000891 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760000892 dimer interface [polypeptide binding]; other site 557760000893 phosphorylation site [posttranslational modification] 557760000894 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760000895 ATP binding site [chemical binding]; other site 557760000896 Mg2+ binding site [ion binding]; other site 557760000897 G-X-G motif; other site 557760000898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760000899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760000900 active site 557760000901 phosphorylation site [posttranslational modification] 557760000902 intermolecular recognition site; other site 557760000903 dimerization interface [polypeptide binding]; other site 557760000904 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 557760000905 DNA binding site [nucleotide binding] 557760000906 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 557760000907 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557760000908 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 557760000909 protein binding site [polypeptide binding]; other site 557760000910 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 557760000911 protein binding site [polypeptide binding]; other site 557760000912 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 557760000913 putative substrate translocation pore; other site 557760000914 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 557760000915 D-aminopeptidase; Reviewed; Region: PRK13128 557760000916 Beta-lactamase; Region: Beta-lactamase; pfam00144 557760000917 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 557760000918 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 557760000919 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557760000920 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 557760000921 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557760000922 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000923 Walker A/P-loop; other site 557760000924 ATP binding site [chemical binding]; other site 557760000925 Q-loop/lid; other site 557760000926 ABC transporter signature motif; other site 557760000927 Walker B; other site 557760000928 D-loop; other site 557760000929 H-loop/switch region; other site 557760000930 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760000931 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000932 Walker A/P-loop; other site 557760000933 ATP binding site [chemical binding]; other site 557760000934 Q-loop/lid; other site 557760000935 ABC transporter signature motif; other site 557760000936 Walker B; other site 557760000937 D-loop; other site 557760000938 H-loop/switch region; other site 557760000939 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 557760000940 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 557760000941 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 557760000942 dimer interface [polypeptide binding]; other site 557760000943 conserved gate region; other site 557760000944 putative PBP binding loops; other site 557760000945 ABC-ATPase subunit interface; other site 557760000946 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760000947 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 557760000948 dimer interface [polypeptide binding]; other site 557760000949 conserved gate region; other site 557760000950 putative PBP binding loops; other site 557760000951 ABC-ATPase subunit interface; other site 557760000952 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000953 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557760000954 Walker A/P-loop; other site 557760000955 ATP binding site [chemical binding]; other site 557760000956 Q-loop/lid; other site 557760000957 ABC transporter signature motif; other site 557760000958 Walker B; other site 557760000959 D-loop; other site 557760000960 H-loop/switch region; other site 557760000961 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760000962 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760000963 Walker A/P-loop; other site 557760000964 ATP binding site [chemical binding]; other site 557760000965 Q-loop/lid; other site 557760000966 ABC transporter signature motif; other site 557760000967 Walker B; other site 557760000968 D-loop; other site 557760000969 H-loop/switch region; other site 557760000970 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 557760000971 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 557760000972 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 557760000973 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557760000974 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760000975 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 557760000976 dimer interface [polypeptide binding]; other site 557760000977 conserved gate region; other site 557760000978 putative PBP binding loops; other site 557760000979 ABC-ATPase subunit interface; other site 557760000980 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 557760000981 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 557760000982 dimer interface [polypeptide binding]; other site 557760000983 conserved gate region; other site 557760000984 putative PBP binding loops; other site 557760000985 ABC-ATPase subunit interface; other site 557760000986 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 557760000987 ANTAR domain; Region: ANTAR; pfam03861 557760000988 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760000989 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 557760000990 aminotransferase; Provisional; Region: PRK06105 557760000991 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 557760000992 inhibitor-cofactor binding pocket; inhibition site 557760000993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760000994 catalytic residue [active] 557760000995 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 557760000996 active site 557760000997 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 557760000998 Cytochrome c; Region: Cytochrom_C; pfam00034 557760000999 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 557760001000 AMP binding site [chemical binding]; other site 557760001001 metal binding site [ion binding]; metal-binding site 557760001002 active site 557760001003 phosphoribulokinase; Provisional; Region: PRK15453 557760001004 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 557760001005 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 557760001006 TPP-binding site [chemical binding]; other site 557760001007 dimer interface [polypeptide binding]; other site 557760001008 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 557760001009 PYR/PP interface [polypeptide binding]; other site 557760001010 dimer interface [polypeptide binding]; other site 557760001011 TPP binding site [chemical binding]; other site 557760001012 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 557760001013 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557760001014 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557760001015 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 557760001016 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 557760001017 intersubunit interface [polypeptide binding]; other site 557760001018 active site 557760001019 zinc binding site [ion binding]; other site 557760001020 Na+ binding site [ion binding]; other site 557760001021 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 557760001022 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 557760001023 dimer interface [polypeptide binding]; other site 557760001024 active site 557760001025 catalytic residue [active] 557760001026 metal binding site [ion binding]; metal-binding site 557760001027 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 557760001028 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 557760001029 ABC-2 type transporter; Region: ABC2_membrane; cl17235 557760001030 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557760001031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557760001032 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557760001033 Walker A/P-loop; other site 557760001034 ATP binding site [chemical binding]; other site 557760001035 Q-loop/lid; other site 557760001036 ABC transporter signature motif; other site 557760001037 Walker B; other site 557760001038 D-loop; other site 557760001039 H-loop/switch region; other site 557760001040 MoxR-like ATPases [General function prediction only]; Region: COG0714 557760001041 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 557760001042 Walker A motif; other site 557760001043 ATP binding site [chemical binding]; other site 557760001044 Walker B motif; other site 557760001045 arginine finger; other site 557760001046 Protein of unknown function DUF58; Region: DUF58; pfam01882 557760001047 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 557760001048 metal ion-dependent adhesion site (MIDAS); other site 557760001049 von Willebrand factor type A domain; Region: VWA_2; pfam13519 557760001050 metal ion-dependent adhesion site (MIDAS); other site 557760001051 TPR repeat; Region: TPR_11; pfam13414 557760001052 Oxygen tolerance; Region: BatD; pfam13584 557760001053 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557760001054 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557760001055 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 557760001056 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 557760001057 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 557760001058 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557760001059 PYR/PP interface [polypeptide binding]; other site 557760001060 dimer interface [polypeptide binding]; other site 557760001061 TPP binding site [chemical binding]; other site 557760001062 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557760001063 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 557760001064 TPP-binding site [chemical binding]; other site 557760001065 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 557760001066 potential frameshift: common BLAST hit: gi|126464755|ref|YP_001045868.1| myo-inositol catabolism IolB domain-containing protein 557760001067 KduI/IolB family; Region: KduI; cl01508 557760001068 KduI/IolB family; Region: KduI; cl01508 557760001069 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557760001070 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760001071 Walker A/P-loop; other site 557760001072 ATP binding site [chemical binding]; other site 557760001073 Q-loop/lid; other site 557760001074 ABC transporter signature motif; other site 557760001075 Walker B; other site 557760001076 D-loop; other site 557760001077 H-loop/switch region; other site 557760001078 TOBE domain; Region: TOBE_2; pfam08402 557760001079 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760001080 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 557760001081 dimer interface [polypeptide binding]; other site 557760001082 conserved gate region; other site 557760001083 putative PBP binding loops; other site 557760001084 ABC-ATPase subunit interface; other site 557760001085 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 557760001086 dimer interface [polypeptide binding]; other site 557760001087 conserved gate region; other site 557760001088 putative PBP binding loops; other site 557760001089 ABC-ATPase subunit interface; other site 557760001090 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760001091 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760001092 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 557760001093 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 557760001094 PhoU domain; Region: PhoU; pfam01895 557760001095 PhoU domain; Region: PhoU; pfam01895 557760001096 choline dehydrogenase; Validated; Region: PRK02106 557760001097 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557760001098 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 557760001099 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 557760001100 TM-ABC transporter signature motif; other site 557760001101 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760001102 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 557760001103 TM-ABC transporter signature motif; other site 557760001104 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557760001105 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760001106 Walker A/P-loop; other site 557760001107 ATP binding site [chemical binding]; other site 557760001108 Q-loop/lid; other site 557760001109 ABC transporter signature motif; other site 557760001110 Walker B; other site 557760001111 D-loop; other site 557760001112 H-loop/switch region; other site 557760001113 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760001114 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760001115 Walker A/P-loop; other site 557760001116 ATP binding site [chemical binding]; other site 557760001117 Q-loop/lid; other site 557760001118 ABC transporter signature motif; other site 557760001119 Walker B; other site 557760001120 D-loop; other site 557760001121 H-loop/switch region; other site 557760001122 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760001123 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 557760001124 putative ligand binding site [chemical binding]; other site 557760001125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760001126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760001127 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557760001128 dimerization interface [polypeptide binding]; other site 557760001129 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557760001130 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 557760001131 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 557760001132 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 557760001133 active site 557760001134 intersubunit interface [polypeptide binding]; other site 557760001135 catalytic residue [active] 557760001136 Response regulator receiver domain; Region: Response_reg; pfam00072 557760001137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760001138 active site 557760001139 phosphorylation site [posttranslational modification] 557760001140 intermolecular recognition site; other site 557760001141 dimerization interface [polypeptide binding]; other site 557760001142 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557760001143 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557760001144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760001145 dimer interface [polypeptide binding]; other site 557760001146 putative CheW interface [polypeptide binding]; other site 557760001147 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 557760001148 ABC1 family; Region: ABC1; pfam03109 557760001149 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 557760001150 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557760001151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760001152 oxidoreductase; Validated; Region: PRK05717 557760001153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760001154 NAD(P) binding site [chemical binding]; other site 557760001155 active site 557760001156 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760001157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760001158 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 557760001159 Protein export membrane protein; Region: SecD_SecF; cl14618 557760001160 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557760001161 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557760001162 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760001163 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 557760001164 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 557760001165 Walker A motif; other site 557760001166 ATP binding site [chemical binding]; other site 557760001167 Walker B motif; other site 557760001168 arginine finger; other site 557760001169 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760001170 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557760001171 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 557760001172 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760001173 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 557760001174 DNA binding residues [nucleotide binding] 557760001175 dimerization interface [polypeptide binding]; other site 557760001176 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 557760001177 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557760001178 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557760001179 active site 557760001180 Rhomboid family; Region: Rhomboid; pfam01694 557760001181 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 557760001182 Protein of unknown function (DUF465); Region: DUF465; pfam04325 557760001183 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 557760001184 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 557760001185 transmembrane helices; other site 557760001186 TrkA-C domain; Region: TrkA_C; pfam02080 557760001187 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 557760001188 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 557760001189 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 557760001190 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 557760001191 LrgA family; Region: LrgA; pfam03788 557760001192 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557760001193 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760001194 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 557760001195 dimer interface [polypeptide binding]; other site 557760001196 conserved gate region; other site 557760001197 putative PBP binding loops; other site 557760001198 ABC-ATPase subunit interface; other site 557760001199 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 557760001200 dimer interface [polypeptide binding]; other site 557760001201 conserved gate region; other site 557760001202 putative PBP binding loops; other site 557760001203 ABC-ATPase subunit interface; other site 557760001204 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557760001205 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760001206 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760001207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760001208 Walker A/P-loop; other site 557760001209 ATP binding site [chemical binding]; other site 557760001210 Q-loop/lid; other site 557760001211 ABC transporter signature motif; other site 557760001212 Walker B; other site 557760001213 D-loop; other site 557760001214 H-loop/switch region; other site 557760001215 TOBE domain; Region: TOBE_2; pfam08402 557760001216 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760001217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760001218 DNA-binding site [nucleotide binding]; DNA binding site 557760001219 FCD domain; Region: FCD; pfam07729 557760001220 Predicted transcriptional regulator [Transcription]; Region: COG1959 557760001221 Transcriptional regulator; Region: Rrf2; cl17282 557760001222 Predicted permeases [General function prediction only]; Region: RarD; COG2962 557760001223 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557760001224 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 557760001225 heme binding site [chemical binding]; other site 557760001226 ferroxidase pore; other site 557760001227 ferroxidase diiron center [ion binding]; other site 557760001228 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760001229 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 557760001230 PAS domain; Region: PAS_9; pfam13426 557760001231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760001232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760001233 metal binding site [ion binding]; metal-binding site 557760001234 active site 557760001235 I-site; other site 557760001236 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557760001237 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557760001238 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 557760001239 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 557760001240 substrate binding pocket [chemical binding]; other site 557760001241 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 557760001242 B12 binding site [chemical binding]; other site 557760001243 cobalt ligand [ion binding]; other site 557760001244 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 557760001245 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 557760001246 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 557760001247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760001248 Transposase; Region: HTH_Tnp_1; cl17663 557760001249 putative transposase OrfB; Reviewed; Region: PHA02517 557760001250 HTH-like domain; Region: HTH_21; pfam13276 557760001251 Integrase core domain; Region: rve; pfam00665 557760001252 Integrase core domain; Region: rve_3; pfam13683 557760001253 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 557760001254 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557760001255 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 557760001256 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 557760001257 dimer interface [polypeptide binding]; other site 557760001258 putative tRNA-binding site [nucleotide binding]; other site 557760001259 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557760001260 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 557760001261 dimerization interface [polypeptide binding]; other site 557760001262 ligand binding site [chemical binding]; other site 557760001263 NADP binding site [chemical binding]; other site 557760001264 catalytic site [active] 557760001265 HAMP domain; Region: HAMP; pfam00672 557760001266 dimerization interface [polypeptide binding]; other site 557760001267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760001268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760001269 metal binding site [ion binding]; metal-binding site 557760001270 active site 557760001271 I-site; other site 557760001272 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 557760001273 Amidase; Region: Amidase; cl11426 557760001274 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 557760001275 DctM-like transporters; Region: DctM; pfam06808 557760001276 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 557760001277 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760001278 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557760001279 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 557760001280 FtsX-like permease family; Region: FtsX; pfam02687 557760001281 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557760001282 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557760001283 Walker A/P-loop; other site 557760001284 ATP binding site [chemical binding]; other site 557760001285 Q-loop/lid; other site 557760001286 ABC transporter signature motif; other site 557760001287 Walker B; other site 557760001288 D-loop; other site 557760001289 H-loop/switch region; other site 557760001290 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557760001291 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557760001292 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760001293 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 557760001294 Dehydroquinase class II; Region: DHquinase_II; pfam01220 557760001295 trimer interface [polypeptide binding]; other site 557760001296 active site 557760001297 dimer interface [polypeptide binding]; other site 557760001298 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 557760001299 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760001300 putative GSH binding site (G-site) [chemical binding]; other site 557760001301 putative C-terminal domain interface [polypeptide binding]; other site 557760001302 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 557760001303 putative N-terminal domain interface [polypeptide binding]; other site 557760001304 putative dimer interface [polypeptide binding]; other site 557760001305 putative substrate binding pocket (H-site) [chemical binding]; other site 557760001306 RES domain; Region: RES; pfam08808 557760001307 Bacterial SH3 domain; Region: SH3_3; pfam08239 557760001308 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 557760001309 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 557760001310 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 557760001311 NADP binding site [chemical binding]; other site 557760001312 dimer interface [polypeptide binding]; other site 557760001313 Uncharacterized conserved protein [Function unknown]; Region: COG2128 557760001314 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 557760001315 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 557760001316 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 557760001317 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 557760001318 putative active site pocket [active] 557760001319 metal binding site [ion binding]; metal-binding site 557760001320 transcriptional activator TtdR; Provisional; Region: PRK09801 557760001321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760001322 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 557760001323 putative effector binding pocket; other site 557760001324 putative dimerization interface [polypeptide binding]; other site 557760001325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557760001326 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 557760001327 tartrate dehydrogenase; Region: TTC; TIGR02089 557760001328 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 557760001329 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 557760001330 tartrate dehydrogenase; Region: TTC; TIGR02089 557760001331 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 557760001332 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557760001333 Walker A/P-loop; other site 557760001334 ATP binding site [chemical binding]; other site 557760001335 Q-loop/lid; other site 557760001336 ABC transporter signature motif; other site 557760001337 Walker B; other site 557760001338 D-loop; other site 557760001339 H-loop/switch region; other site 557760001340 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557760001341 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 557760001342 dimer interface [polypeptide binding]; other site 557760001343 putative PBP binding regions; other site 557760001344 ABC-ATPase subunit interface; other site 557760001345 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 557760001346 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 557760001347 putative ligand binding residues [chemical binding]; other site 557760001348 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760001349 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 557760001350 dimer interface [polypeptide binding]; other site 557760001351 conserved gate region; other site 557760001352 putative PBP binding loops; other site 557760001353 ABC-ATPase subunit interface; other site 557760001354 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557760001355 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 557760001356 dimer interface [polypeptide binding]; other site 557760001357 conserved gate region; other site 557760001358 putative PBP binding loops; other site 557760001359 ABC-ATPase subunit interface; other site 557760001360 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760001361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760001362 Walker A/P-loop; other site 557760001363 ATP binding site [chemical binding]; other site 557760001364 Q-loop/lid; other site 557760001365 ABC transporter signature motif; other site 557760001366 Walker B; other site 557760001367 D-loop; other site 557760001368 H-loop/switch region; other site 557760001369 TOBE domain; Region: TOBE_2; pfam08402 557760001370 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760001371 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 557760001372 hypothetical protein; Validated; Region: PRK06201 557760001373 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 557760001374 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 557760001375 nitrilase; Region: PLN02798 557760001376 putative active site [active] 557760001377 catalytic triad [active] 557760001378 dimer interface [polypeptide binding]; other site 557760001379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760001380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760001381 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 557760001382 dimerization interface [polypeptide binding]; other site 557760001383 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760001384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760001385 metal binding site [ion binding]; metal-binding site 557760001386 active site 557760001387 I-site; other site 557760001388 GAF domain; Region: GAF; cl17456 557760001389 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760001390 PAS domain; Region: PAS_9; pfam13426 557760001391 putative active site [active] 557760001392 heme pocket [chemical binding]; other site 557760001393 PAS domain; Region: PAS_9; pfam13426 557760001394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760001395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760001396 metal binding site [ion binding]; metal-binding site 557760001397 active site 557760001398 I-site; other site 557760001399 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 557760001400 Uncharacterized conserved protein [Function unknown]; Region: COG1434 557760001401 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 557760001402 putative active site [active] 557760001403 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 557760001404 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 557760001405 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760001406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760001407 DNA-binding site [nucleotide binding]; DNA binding site 557760001408 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557760001409 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 557760001410 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 557760001411 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 557760001412 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 557760001413 NAD binding site [chemical binding]; other site 557760001414 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557760001415 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557760001416 inhibitor site; inhibition site 557760001417 active site 557760001418 dimer interface [polypeptide binding]; other site 557760001419 catalytic residue [active] 557760001420 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 557760001421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557760001422 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 557760001423 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557760001424 active site 557760001425 NAD binding site [chemical binding]; other site 557760001426 metal binding site [ion binding]; metal-binding site 557760001427 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 557760001428 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557760001429 Walker A/P-loop; other site 557760001430 ATP binding site [chemical binding]; other site 557760001431 Q-loop/lid; other site 557760001432 ABC transporter signature motif; other site 557760001433 Walker B; other site 557760001434 D-loop; other site 557760001435 H-loop/switch region; other site 557760001436 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 557760001437 dimer interface [polypeptide binding]; other site 557760001438 putative PBP binding regions; other site 557760001439 ABC-ATPase subunit interface; other site 557760001440 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557760001441 ABC-ATPase subunit interface; other site 557760001442 dimer interface [polypeptide binding]; other site 557760001443 putative PBP binding regions; other site 557760001444 ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]; Region: FepD; COG0609 557760001445 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 557760001446 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557760001447 intersubunit interface [polypeptide binding]; other site 557760001448 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 557760001449 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760001450 N-terminal plug; other site 557760001451 ligand-binding site [chemical binding]; other site 557760001452 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557760001453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760001454 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760001455 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557760001456 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760001457 dimer interface [polypeptide binding]; other site 557760001458 putative CheW interface [polypeptide binding]; other site 557760001459 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 557760001460 putative catalytic site [active] 557760001461 putative phosphate binding site [ion binding]; other site 557760001462 active site 557760001463 metal binding site A [ion binding]; metal-binding site 557760001464 DNA binding site [nucleotide binding] 557760001465 putative AP binding site [nucleotide binding]; other site 557760001466 putative metal binding site B [ion binding]; other site 557760001467 C factor cell-cell signaling protein; Provisional; Region: PRK09009 557760001468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760001469 NAD(P) binding site [chemical binding]; other site 557760001470 active site 557760001471 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 557760001472 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 557760001473 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 557760001474 putative heme binding site [chemical binding]; other site 557760001475 putative substrate binding site [chemical binding]; other site 557760001476 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 557760001477 active site 557760001478 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 557760001479 active site 557760001480 catalytic triad [active] 557760001481 oxyanion hole [active] 557760001482 Caspase domain; Region: Peptidase_C14; pfam00656 557760001483 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760001484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760001485 active site 557760001486 phosphorylation site [posttranslational modification] 557760001487 intermolecular recognition site; other site 557760001488 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 557760001489 DNA binding site [nucleotide binding] 557760001490 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760001491 dimer interface [polypeptide binding]; other site 557760001492 phosphorylation site [posttranslational modification] 557760001493 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760001494 ATP binding site [chemical binding]; other site 557760001495 Mg2+ binding site [ion binding]; other site 557760001496 G-X-G motif; other site 557760001497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760001498 dimer interface [polypeptide binding]; other site 557760001499 putative CheW interface [polypeptide binding]; other site 557760001500 nickel responsive regulator; Provisional; Region: PRK02967 557760001501 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 557760001502 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 557760001503 Protein of unknown function (DUF3140); Region: DUF3140; pfam11338 557760001504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760001505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760001506 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 557760001507 putative dimerization interface [polypeptide binding]; other site 557760001508 aspartate aminotransferase; Provisional; Region: PRK06207 557760001509 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 557760001510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760001511 homodimer interface [polypeptide binding]; other site 557760001512 catalytic residue [active] 557760001513 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 557760001514 homotrimer interaction site [polypeptide binding]; other site 557760001515 putative active site [active] 557760001516 aspartate aminotransferase; Provisional; Region: PRK05764 557760001517 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 557760001518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760001519 homodimer interface [polypeptide binding]; other site 557760001520 catalytic residue [active] 557760001521 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 557760001522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760001523 NAD(P) binding site [chemical binding]; other site 557760001524 active site 557760001525 hypothetical protein; Validated; Region: PRK08245 557760001526 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 557760001527 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 557760001528 putative ligand binding site [chemical binding]; other site 557760001529 NAD binding site [chemical binding]; other site 557760001530 dimerization interface [polypeptide binding]; other site 557760001531 catalytic site [active] 557760001532 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 557760001533 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557760001534 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557760001535 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 557760001536 active site 557760001537 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760001538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760001539 DNA-binding site [nucleotide binding]; DNA binding site 557760001540 allantoate amidohydrolase; Reviewed; Region: PRK12890 557760001541 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 557760001542 active site 557760001543 metal binding site [ion binding]; metal-binding site 557760001544 dimer interface [polypeptide binding]; other site 557760001545 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 557760001546 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557760001547 ligand binding site [chemical binding]; other site 557760001548 NAD binding site [chemical binding]; other site 557760001549 dimerization interface [polypeptide binding]; other site 557760001550 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760001551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760001552 DNA-binding site [nucleotide binding]; DNA binding site 557760001553 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557760001554 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 557760001555 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 557760001556 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 557760001557 DctM-like transporters; Region: DctM; pfam06808 557760001558 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760001559 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 557760001560 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760001561 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760001562 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 557760001563 putative active site [active] 557760001564 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 557760001565 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557760001566 homodimer interface [polypeptide binding]; other site 557760001567 substrate-cofactor binding pocket; other site 557760001568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760001569 catalytic residue [active] 557760001570 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557760001571 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557760001572 inhibitor site; inhibition site 557760001573 active site 557760001574 dimer interface [polypeptide binding]; other site 557760001575 catalytic residue [active] 557760001576 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557760001577 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 557760001578 substrate binding pocket [chemical binding]; other site 557760001579 membrane-bound complex binding site; other site 557760001580 hinge residues; other site 557760001581 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557760001582 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557760001583 Walker A/P-loop; other site 557760001584 ATP binding site [chemical binding]; other site 557760001585 Q-loop/lid; other site 557760001586 ABC transporter signature motif; other site 557760001587 Walker B; other site 557760001588 D-loop; other site 557760001589 H-loop/switch region; other site 557760001590 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 557760001591 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557760001592 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 557760001593 dimer interface [polypeptide binding]; other site 557760001594 conserved gate region; other site 557760001595 ABC-ATPase subunit interface; other site 557760001596 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 557760001597 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557760001598 tetramer interface [polypeptide binding]; other site 557760001599 active site 557760001600 catalytic triad [active] 557760001601 dimer interface [polypeptide binding]; other site 557760001602 dihydropyrimidinase; Provisional; Region: PRK13404 557760001603 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 557760001604 tetramer interface [polypeptide binding]; other site 557760001605 active site 557760001606 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557760001607 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 557760001608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760001609 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 557760001610 putative dimerization interface [polypeptide binding]; other site 557760001611 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 557760001612 conserved hypothetical protein; Region: TIGR02270 557760001613 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 557760001614 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 557760001615 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 557760001616 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 557760001617 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 557760001618 Walker A motif; other site 557760001619 ATP binding site [chemical binding]; other site 557760001620 Walker B motif; other site 557760001621 arginine finger; other site 557760001622 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 557760001623 Walker A motif; other site 557760001624 ATP binding site [chemical binding]; other site 557760001625 Walker B motif; other site 557760001626 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557760001627 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 557760001628 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557760001629 active site 557760001630 ATP binding site [chemical binding]; other site 557760001631 substrate binding site [chemical binding]; other site 557760001632 activation loop (A-loop); other site 557760001633 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 557760001634 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 557760001635 Protein of unknown function (DUF770); Region: DUF770; pfam05591 557760001636 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 557760001637 Protein of unknown function (DUF877); Region: DUF877; pfam05943 557760001638 Protein of unknown function (DUF796); Region: DUF796; pfam05638 557760001639 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 557760001640 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 557760001641 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 557760001642 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 557760001643 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 557760001644 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 557760001645 phosphopeptide binding site; other site 557760001646 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 557760001647 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 557760001648 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 557760001649 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 557760001650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760001651 ligand binding site [chemical binding]; other site 557760001652 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 557760001653 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 557760001654 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 557760001655 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 557760001656 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557760001657 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557760001658 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557760001659 Flagellin protein; Region: FliC; pfam12445 557760001660 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557760001661 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 557760001662 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 557760001663 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 557760001664 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 557760001665 active site 557760001666 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760001667 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760001668 ligand binding site [chemical binding]; other site 557760001669 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 557760001670 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760001671 Caspase domain; Region: Peptidase_C14; pfam00656 557760001672 dimer interface [polypeptide binding]; other site 557760001673 substrate pocket [chemical binding]; other site 557760001674 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760001675 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557760001676 TPR motif; other site 557760001677 binding surface 557760001678 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557760001679 Sel1-like repeats; Region: SEL1; smart00671 557760001680 Sel1-like repeats; Region: SEL1; smart00671 557760001681 Sel1-like repeats; Region: SEL1; smart00671 557760001682 Uncharacterized conserved protein [Function unknown]; Region: COG3347 557760001683 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 557760001684 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 557760001685 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 557760001686 ligand binding site [chemical binding]; other site 557760001687 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760001688 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760001689 TM-ABC transporter signature motif; other site 557760001690 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760001691 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760001692 TM-ABC transporter signature motif; other site 557760001693 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 557760001694 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760001695 Walker A/P-loop; other site 557760001696 ATP binding site [chemical binding]; other site 557760001697 Q-loop/lid; other site 557760001698 ABC transporter signature motif; other site 557760001699 Walker B; other site 557760001700 D-loop; other site 557760001701 H-loop/switch region; other site 557760001702 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760001703 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 557760001704 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 557760001705 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 557760001706 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 557760001707 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 557760001708 putative N- and C-terminal domain interface [polypeptide binding]; other site 557760001709 putative active site [active] 557760001710 putative MgATP binding site [chemical binding]; other site 557760001711 catalytic site [active] 557760001712 metal binding site [ion binding]; metal-binding site 557760001713 putative carbohydrate binding site [chemical binding]; other site 557760001714 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557760001715 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 557760001716 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 557760001717 putative metal binding site [ion binding]; other site 557760001718 Uncharacterized conserved protein [Function unknown]; Region: COG1432 557760001719 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 557760001720 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557760001721 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557760001722 Predicted membrane protein [Function unknown]; Region: COG3212 557760001723 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760001724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760001725 active site 557760001726 phosphorylation site [posttranslational modification] 557760001727 intermolecular recognition site; other site 557760001728 dimerization interface [polypeptide binding]; other site 557760001729 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 557760001730 DNA binding site [nucleotide binding] 557760001731 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760001732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760001733 ATP binding site [chemical binding]; other site 557760001734 Mg2+ binding site [ion binding]; other site 557760001735 G-X-G motif; other site 557760001736 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 557760001737 GAF domain; Region: GAF; pfam01590 557760001738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760001739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760001740 metal binding site [ion binding]; metal-binding site 557760001741 active site 557760001742 I-site; other site 557760001743 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557760001744 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 557760001745 conserved cys residue [active] 557760001746 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557760001747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760001748 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760001749 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557760001750 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760001751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760001752 Walker A/P-loop; other site 557760001753 ATP binding site [chemical binding]; other site 557760001754 Q-loop/lid; other site 557760001755 ABC transporter signature motif; other site 557760001756 Walker B; other site 557760001757 D-loop; other site 557760001758 H-loop/switch region; other site 557760001759 TOBE domain; Region: TOBE_2; pfam08402 557760001760 sulfate transport protein; Provisional; Region: cysT; CHL00187 557760001761 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 557760001762 dimer interface [polypeptide binding]; other site 557760001763 conserved gate region; other site 557760001764 putative PBP binding loops; other site 557760001765 ABC-ATPase subunit interface; other site 557760001766 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760001767 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 557760001768 dimer interface [polypeptide binding]; other site 557760001769 conserved gate region; other site 557760001770 putative PBP binding loops; other site 557760001771 ABC-ATPase subunit interface; other site 557760001772 proline racemase; Provisional; Region: PRK13969 557760001773 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 557760001774 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557760001775 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760001776 Walker A/P-loop; other site 557760001777 ATP binding site [chemical binding]; other site 557760001778 Q-loop/lid; other site 557760001779 ABC transporter signature motif; other site 557760001780 Walker B; other site 557760001781 D-loop; other site 557760001782 H-loop/switch region; other site 557760001783 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760001784 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760001785 Walker A/P-loop; other site 557760001786 ATP binding site [chemical binding]; other site 557760001787 Q-loop/lid; other site 557760001788 ABC transporter signature motif; other site 557760001789 Walker B; other site 557760001790 D-loop; other site 557760001791 H-loop/switch region; other site 557760001792 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760001793 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 557760001794 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 557760001795 dimer interface [polypeptide binding]; other site 557760001796 conserved gate region; other site 557760001797 putative PBP binding loops; other site 557760001798 ABC-ATPase subunit interface; other site 557760001799 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760001800 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 557760001801 dimer interface [polypeptide binding]; other site 557760001802 conserved gate region; other site 557760001803 ABC-ATPase subunit interface; other site 557760001804 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_17; cd08503 557760001805 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557760001806 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_17; cd08503 557760001807 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557760001808 putative amidase; Provisional; Region: PRK06169 557760001809 Amidase; Region: Amidase; cl11426 557760001810 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 557760001811 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557760001812 active site 557760001813 Zn binding site [ion binding]; other site 557760001814 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760001815 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 557760001816 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 557760001817 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 557760001818 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760001819 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 557760001820 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760001821 acyl-activating enzyme (AAE) consensus motif; other site 557760001822 AMP binding site [chemical binding]; other site 557760001823 active site 557760001824 CoA binding site [chemical binding]; other site 557760001825 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557760001826 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 557760001827 NAD(P) binding site [chemical binding]; other site 557760001828 catalytic residues [active] 557760001829 hypothetical protein; Provisional; Region: PRK07036 557760001830 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 557760001831 inhibitor-cofactor binding pocket; inhibition site 557760001832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760001833 catalytic residue [active] 557760001834 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760001835 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 557760001836 substrate binding site [chemical binding]; other site 557760001837 oxyanion hole (OAH) forming residues; other site 557760001838 trimer interface [polypeptide binding]; other site 557760001839 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557760001840 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557760001841 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 557760001842 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 557760001843 dimer interface [polypeptide binding]; other site 557760001844 active site 557760001845 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 557760001846 Prostaglandin dehydrogenases; Region: PGDH; cd05288 557760001847 NAD(P) binding site [chemical binding]; other site 557760001848 substrate binding site [chemical binding]; other site 557760001849 dimer interface [polypeptide binding]; other site 557760001850 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 557760001851 VCBS repeat; Region: VCBS_repeat; TIGR01965 557760001852 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 557760001853 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 557760001854 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 557760001855 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 557760001856 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 557760001857 active site 557760001858 dimer interface [polypeptide binding]; other site 557760001859 effector binding site; other site 557760001860 TSCPD domain; Region: TSCPD; pfam12637 557760001861 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 557760001862 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 557760001863 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 557760001864 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557760001865 active site 557760001866 dimer interface [polypeptide binding]; other site 557760001867 motif 2; other site 557760001868 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557760001869 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557760001870 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 557760001871 dimer interface [polypeptide binding]; other site 557760001872 motif 1; other site 557760001873 active site 557760001874 motif 2; other site 557760001875 motif 3; other site 557760001876 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 557760001877 anticodon binding site; other site 557760001878 SlyX; Region: SlyX; cl01090 557760001879 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 557760001880 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 557760001881 putative active site [active] 557760001882 putative PHP Thumb interface [polypeptide binding]; other site 557760001883 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 557760001884 generic binding surface II; other site 557760001885 generic binding surface I; other site 557760001886 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 557760001887 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 557760001888 catalytic loop [active] 557760001889 iron binding site [ion binding]; other site 557760001890 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557760001891 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 557760001892 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 557760001893 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557760001894 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557760001895 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557760001896 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 557760001897 XdhC Rossmann domain; Region: XdhC_C; pfam13478 557760001898 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 557760001899 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760001900 Walker A/P-loop; other site 557760001901 ATP binding site [chemical binding]; other site 557760001902 Q-loop/lid; other site 557760001903 ABC transporter signature motif; other site 557760001904 Walker B; other site 557760001905 D-loop; other site 557760001906 H-loop/switch region; other site 557760001907 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760001908 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760001909 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 557760001910 TM-ABC transporter signature motif; other site 557760001911 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760001912 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 557760001913 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 557760001914 TM-ABC transporter signature motif; other site 557760001915 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 557760001916 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 557760001917 putative ligand binding site [chemical binding]; other site 557760001918 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557760001919 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760001920 Protein of unknown function (DUF938); Region: DUF938; pfam06080 557760001921 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 557760001922 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 557760001923 active site 557760001924 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760001925 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557760001926 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 557760001927 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557760001928 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557760001929 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557760001930 ABC-ATPase subunit interface; other site 557760001931 dimer interface [polypeptide binding]; other site 557760001932 putative PBP binding regions; other site 557760001933 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 557760001934 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557760001935 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 557760001936 metal binding site 2 [ion binding]; metal-binding site 557760001937 putative DNA binding helix; other site 557760001938 metal binding site 1 [ion binding]; metal-binding site 557760001939 dimer interface [polypeptide binding]; other site 557760001940 structural Zn2+ binding site [ion binding]; other site 557760001941 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 557760001942 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557760001943 metal binding site [ion binding]; metal-binding site 557760001944 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 557760001945 active site 557760001946 catalytic residues [active] 557760001947 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 557760001948 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 557760001949 active sites [active] 557760001950 tetramer interface [polypeptide binding]; other site 557760001951 Gas vesicle protein K; Region: GvpK; pfam05121 557760001952 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 557760001953 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 557760001954 Gas vesicle protein G; Region: GvpG; pfam05120 557760001955 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 557760001956 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 557760001957 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 557760001958 putative dimer interface [polypeptide binding]; other site 557760001959 Gas vesicle protein; Region: Gas_vesicle; pfam00741 557760001960 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 557760001961 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 557760001962 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 557760001963 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 557760001964 Walker A motif; other site 557760001965 ATP binding site [chemical binding]; other site 557760001966 Predicted membrane protein [Function unknown]; Region: COG3748 557760001967 Protein of unknown function (DUF989); Region: DUF989; pfam06181 557760001968 Cytochrome c; Region: Cytochrom_C; pfam00034 557760001969 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 557760001970 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 557760001971 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 557760001972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760001973 catalytic residue [active] 557760001974 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760001975 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 557760001976 active site 557760001977 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 557760001978 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 557760001979 IHF dimer interface [polypeptide binding]; other site 557760001980 IHF - DNA interface [nucleotide binding]; other site 557760001981 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 557760001982 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 557760001983 RNA binding site [nucleotide binding]; other site 557760001984 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 557760001985 RNA binding site [nucleotide binding]; other site 557760001986 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 557760001987 RNA binding site [nucleotide binding]; other site 557760001988 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 557760001989 RNA binding site [nucleotide binding]; other site 557760001990 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 557760001991 RNA binding site [nucleotide binding]; other site 557760001992 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 557760001993 RNA binding site [nucleotide binding]; other site 557760001994 cytidylate kinase; Provisional; Region: cmk; PRK00023 557760001995 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 557760001996 Cytidylate kinase; Region: Cytidylate_kin; pfam02224 557760001997 CMP-binding site; other site 557760001998 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 557760001999 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 557760002000 hinge; other site 557760002001 active site 557760002002 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 557760002003 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760002004 S-adenosylmethionine synthetase; Validated; Region: PRK05250 557760002005 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 557760002006 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 557760002007 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 557760002008 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 557760002009 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 557760002010 putative active site [active] 557760002011 catalytic triad [active] 557760002012 putative dimer interface [polypeptide binding]; other site 557760002013 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 557760002014 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 557760002015 Transporter associated domain; Region: CorC_HlyC; smart01091 557760002016 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 557760002017 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 557760002018 PhoH-like protein; Region: PhoH; pfam02562 557760002019 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 557760002020 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557760002021 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 557760002022 FeS/SAM binding site; other site 557760002023 TRAM domain; Region: TRAM; cl01282 557760002024 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 557760002025 active site 557760002026 catalytic triad [active] 557760002027 oxyanion hole [active] 557760002028 switch loop; other site 557760002029 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 557760002030 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557760002031 Walker A/P-loop; other site 557760002032 ATP binding site [chemical binding]; other site 557760002033 Q-loop/lid; other site 557760002034 ABC transporter signature motif; other site 557760002035 Walker B; other site 557760002036 D-loop; other site 557760002037 H-loop/switch region; other site 557760002038 FtsX-like permease family; Region: FtsX; pfam02687 557760002039 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 557760002040 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 557760002041 active site residue [active] 557760002042 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 557760002043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760002044 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 557760002045 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 557760002046 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 557760002047 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 557760002048 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 557760002049 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 557760002050 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 557760002051 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 557760002052 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 557760002053 active site 557760002054 Int/Topo IB signature motif; other site 557760002055 catalytic residues [active] 557760002056 DNA binding site [nucleotide binding] 557760002057 ParB-like nuclease domain; Region: ParBc; cl02129 557760002058 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557760002059 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 557760002060 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 557760002061 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760002062 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 557760002063 ligand binding site [chemical binding]; other site 557760002064 flexible hinge region; other site 557760002065 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 557760002066 putative switch regulator; other site 557760002067 non-specific DNA interactions [nucleotide binding]; other site 557760002068 DNA binding site [nucleotide binding] 557760002069 sequence specific DNA binding site [nucleotide binding]; other site 557760002070 putative cAMP binding site [chemical binding]; other site 557760002071 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557760002072 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 557760002073 ring oligomerisation interface [polypeptide binding]; other site 557760002074 ATP/Mg binding site [chemical binding]; other site 557760002075 stacking interactions; other site 557760002076 hinge regions; other site 557760002077 Putative glucoamylase; Region: Glycoamylase; pfam10091 557760002078 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 557760002079 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 557760002080 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 557760002081 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760002082 DNA-binding site [nucleotide binding]; DNA binding site 557760002083 RNA-binding motif; other site 557760002084 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760002085 DNA-binding site [nucleotide binding]; DNA binding site 557760002086 RNA-binding motif; other site 557760002087 Protein of unknown function (DUF982); Region: DUF982; pfam06169 557760002088 topology modulation protein; Reviewed; Region: PRK08118 557760002089 AAA domain; Region: AAA_17; pfam13207 557760002090 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 557760002091 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 557760002092 catalytic residues [active] 557760002093 catalytic nucleophile [active] 557760002094 Recombinase; Region: Recombinase; pfam07508 557760002095 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 557760002096 potential frameshift: common BLAST hit: gi|77462630|ref|YP_352134.1| ParB family protein 557760002097 ParB-like nuclease domain; Region: ParB; smart00470 557760002098 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 557760002099 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 557760002100 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_19; cd07262 557760002101 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760002102 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 557760002103 Domain of unknown function (DU1801); Region: DUF1801; cl17490 557760002104 Phage Terminase; Region: Terminase_1; pfam03354 557760002105 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557760002106 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760002107 N-terminal plug; other site 557760002108 ligand-binding site [chemical binding]; other site 557760002109 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 557760002110 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557760002111 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557760002112 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 557760002113 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 557760002114 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557760002115 Transposase domain (DUF772); Region: DUF772; pfam05598 557760002116 putative transposase OrfB; Reviewed; Region: PHA02517 557760002117 HTH-like domain; Region: HTH_21; pfam13276 557760002118 Integrase core domain; Region: rve; pfam00665 557760002119 Integrase core domain; Region: rve_3; pfam13683 557760002120 putative transposase OrfB; Reviewed; Region: PHA02517 557760002121 HTH-like domain; Region: HTH_21; pfam13276 557760002122 Integrase core domain; Region: rve; pfam00665 557760002123 Integrase core domain; Region: rve_3; pfam13683 557760002124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760002125 Transposase; Region: HTH_Tnp_1; cl17663 557760002126 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760002127 HTH-like domain; Region: HTH_21; pfam13276 557760002128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760002129 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 557760002130 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 557760002131 putative active site [active] 557760002132 putative metal binding site [ion binding]; other site 557760002133 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 557760002134 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 557760002135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760002136 Transposase; Region: HTH_Tnp_1; cl17663 557760002137 putative transposase OrfB; Reviewed; Region: PHA02517 557760002138 HTH-like domain; Region: HTH_21; pfam13276 557760002139 Integrase core domain; Region: rve; pfam00665 557760002140 Integrase core domain; Region: rve_3; pfam13683 557760002141 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760002142 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 557760002143 ligand binding site [chemical binding]; other site 557760002144 flexible hinge region; other site 557760002145 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 557760002146 putative switch regulator; other site 557760002147 non-specific DNA interactions [nucleotide binding]; other site 557760002148 DNA binding site [nucleotide binding] 557760002149 sequence specific DNA binding site [nucleotide binding]; other site 557760002150 putative cAMP binding site [chemical binding]; other site 557760002151 CAAX protease self-immunity; Region: Abi; pfam02517 557760002152 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557760002153 tellurite resistance protein TehB; Provisional; Region: PRK12335 557760002154 Transcriptional regulator; Region: Rrf2; pfam02082 557760002155 OsmC-like protein; Region: OsmC; pfam02566 557760002156 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 557760002157 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557760002158 active site 557760002159 catalytic tetrad [active] 557760002160 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 557760002161 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557760002162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760002163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760002164 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 557760002165 putative dimerization interface [polypeptide binding]; other site 557760002166 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557760002167 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557760002168 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557760002169 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 557760002170 tetrameric interface [polypeptide binding]; other site 557760002171 NAD binding site [chemical binding]; other site 557760002172 catalytic residues [active] 557760002173 Predicted membrane protein [Function unknown]; Region: COG2855 557760002174 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 557760002175 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 557760002176 putative active site [active] 557760002177 putative metal binding site [ion binding]; other site 557760002178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557760002179 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760002180 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 557760002181 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 557760002182 TPR repeat; Region: TPR_11; pfam13414 557760002183 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760002184 binding surface 557760002185 TPR motif; other site 557760002186 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 557760002187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760002188 DNA-binding site [nucleotide binding]; DNA binding site 557760002189 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 557760002190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760002191 catalytic residue [active] 557760002192 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557760002193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760002194 Coenzyme A binding pocket [chemical binding]; other site 557760002195 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557760002196 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 557760002197 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557760002198 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557760002199 catalytic triad [active] 557760002200 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 557760002201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760002202 DNA-binding site [nucleotide binding]; DNA binding site 557760002203 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 557760002204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760002205 homodimer interface [polypeptide binding]; other site 557760002206 catalytic residue [active] 557760002207 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 557760002208 putative active site pocket [active] 557760002209 dimerization interface [polypeptide binding]; other site 557760002210 putative catalytic residue [active] 557760002211 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 557760002212 Fe-only nitrogenase, beta subunit; Region: anfK_nitrog; TIGR02931 557760002213 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 557760002214 Fe-only nitrogenase, delta subunit; Region: anfG_nitrog; TIGR02929 557760002215 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 557760002216 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 557760002217 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; Region: Fer4_NifH; pfam00142 557760002218 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 557760002219 Nucleotide-binding sites [chemical binding]; other site 557760002220 Switch I region of nucleotide binding site; other site 557760002221 Fe4S4 binding sites [ion binding]; other site 557760002222 Switch II region of nucleotide binding site; other site 557760002223 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 557760002224 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 557760002225 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 557760002226 Walker A motif; other site 557760002227 ATP binding site [chemical binding]; other site 557760002228 Walker B motif; other site 557760002229 arginine finger; other site 557760002230 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557760002231 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760002232 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 557760002233 DNA binding residues [nucleotide binding] 557760002234 dimerization interface [polypeptide binding]; other site 557760002235 Domain of unknown function DUF11; Region: DUF11; pfam01345 557760002236 conserved repeat domain; Region: B_ant_repeat; TIGR01451 557760002237 Domain of unknown function DUF11; Region: DUF11; cl17728 557760002238 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557760002239 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557760002240 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 557760002241 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 557760002242 DNA interaction; other site 557760002243 Metal-binding active site; metal-binding site 557760002244 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760002245 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 557760002246 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 557760002247 putative PBP binding loops; other site 557760002248 dimer interface [polypeptide binding]; other site 557760002249 ABC-ATPase subunit interface; other site 557760002250 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 557760002251 dimer interface [polypeptide binding]; other site 557760002252 conserved gate region; other site 557760002253 putative PBP binding loops; other site 557760002254 ABC-ATPase subunit interface; other site 557760002255 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760002256 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760002257 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; cd00312 557760002258 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557760002259 substrate binding pocket [chemical binding]; other site 557760002260 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760002261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760002262 DNA-binding site [nucleotide binding]; DNA binding site 557760002263 FCD domain; Region: FCD; pfam07729 557760002264 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557760002265 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760002266 Walker A/P-loop; other site 557760002267 ATP binding site [chemical binding]; other site 557760002268 Q-loop/lid; other site 557760002269 ABC transporter signature motif; other site 557760002270 Walker B; other site 557760002271 D-loop; other site 557760002272 H-loop/switch region; other site 557760002273 TOBE domain; Region: TOBE_2; pfam08402 557760002274 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 557760002275 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 557760002276 FAD binding pocket [chemical binding]; other site 557760002277 FAD binding motif [chemical binding]; other site 557760002278 phosphate binding motif [ion binding]; other site 557760002279 NAD binding pocket [chemical binding]; other site 557760002280 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; cl00246 557760002281 FAD binding site [chemical binding]; other site 557760002282 PAS domain; Region: PAS_9; pfam13426 557760002283 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760002284 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760002285 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 557760002286 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 557760002287 putative active site [active] 557760002288 putative FMN binding site [chemical binding]; other site 557760002289 putative substrate binding site [chemical binding]; other site 557760002290 putative catalytic residue [active] 557760002291 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760002292 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 557760002293 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760002294 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 557760002295 DNA binding residues [nucleotide binding] 557760002296 dimerization interface [polypeptide binding]; other site 557760002297 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 557760002298 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557760002299 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557760002300 DNA binding site [nucleotide binding] 557760002301 domain linker motif; other site 557760002302 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_11; cd06293 557760002303 putative dimerization interface [polypeptide binding]; other site 557760002304 putative ligand binding site [chemical binding]; other site 557760002305 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 557760002306 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557760002307 ligand binding site [chemical binding]; other site 557760002308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760002309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760002310 Walker A/P-loop; other site 557760002311 ATP binding site [chemical binding]; other site 557760002312 Q-loop/lid; other site 557760002313 ABC transporter signature motif; other site 557760002314 Walker B; other site 557760002315 D-loop; other site 557760002316 H-loop/switch region; other site 557760002317 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760002318 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760002319 TM-ABC transporter signature motif; other site 557760002320 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 557760002321 active site 557760002322 substrate binding pocket [chemical binding]; other site 557760002323 homodimer interaction site [polypeptide binding]; other site 557760002324 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 557760002325 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 557760002326 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760002327 substrate binding site [chemical binding]; other site 557760002328 ATP binding site [chemical binding]; other site 557760002329 Predicted TIM-barrel enzyme [General function prediction only]; Region: SgcQ; COG0434 557760002330 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 557760002331 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 557760002332 metal binding site [ion binding]; metal-binding site 557760002333 dimer interface [polypeptide binding]; other site 557760002334 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 557760002335 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 557760002336 Walker A/P-loop; other site 557760002337 ATP binding site [chemical binding]; other site 557760002338 Q-loop/lid; other site 557760002339 ABC transporter signature motif; other site 557760002340 Walker B; other site 557760002341 D-loop; other site 557760002342 H-loop/switch region; other site 557760002343 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760002344 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557760002345 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557760002346 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 557760002347 dimer interface [polypeptide binding]; other site 557760002348 conserved gate region; other site 557760002349 putative PBP binding loops; other site 557760002350 ABC-ATPase subunit interface; other site 557760002351 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 557760002352 dimer interface [polypeptide binding]; other site 557760002353 conserved gate region; other site 557760002354 ABC-ATPase subunit interface; other site 557760002355 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557760002356 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557760002357 DNA binding site [nucleotide binding] 557760002358 domain linker motif; other site 557760002359 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 557760002360 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 557760002361 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 557760002362 putative ligand binding site [chemical binding]; other site 557760002363 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760002364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760002365 Walker A/P-loop; other site 557760002366 ATP binding site [chemical binding]; other site 557760002367 Q-loop/lid; other site 557760002368 ABC transporter signature motif; other site 557760002369 Walker B; other site 557760002370 D-loop; other site 557760002371 H-loop/switch region; other site 557760002372 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 557760002373 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760002374 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760002375 TM-ABC transporter signature motif; other site 557760002376 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557760002377 classical (c) SDRs; Region: SDR_c; cd05233 557760002378 NAD(P) binding site [chemical binding]; other site 557760002379 active site 557760002380 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 557760002381 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 557760002382 N- and C-terminal domain interface [polypeptide binding]; other site 557760002383 active site 557760002384 MgATP binding site [chemical binding]; other site 557760002385 catalytic site [active] 557760002386 metal binding site [ion binding]; metal-binding site 557760002387 carbohydrate binding site [chemical binding]; other site 557760002388 putative homodimer interface [polypeptide binding]; other site 557760002389 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557760002390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760002391 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760002392 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 557760002393 ligand binding site [chemical binding]; other site 557760002394 flexible hinge region; other site 557760002395 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557760002396 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 557760002397 dimerization interface [polypeptide binding]; other site 557760002398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557760002399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760002400 dimer interface [polypeptide binding]; other site 557760002401 putative CheW interface [polypeptide binding]; other site 557760002402 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 557760002403 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 557760002404 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 557760002405 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 557760002406 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760002407 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 557760002408 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 557760002409 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760002410 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 557760002411 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 557760002412 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 557760002413 selenophosphate synthetase; Provisional; Region: PRK00943 557760002414 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 557760002415 dimerization interface [polypeptide binding]; other site 557760002416 putative ATP binding site [chemical binding]; other site 557760002417 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557760002418 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557760002419 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 557760002420 colanic acid exporter; Provisional; Region: PRK10459 557760002421 Uncharacterized conserved protein [Function unknown]; Region: COG5663 557760002422 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 557760002423 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 557760002424 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760002425 active site 557760002426 Uncharacterized conserved protein [Function unknown]; Region: COG5663 557760002427 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557760002428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760002429 Histidine kinase; Region: HisKA_2; pfam07568 557760002430 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760002431 ATP binding site [chemical binding]; other site 557760002432 Mg2+ binding site [ion binding]; other site 557760002433 G-X-G motif; other site 557760002434 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557760002435 Dynamin family; Region: Dynamin_N; pfam00350 557760002436 G1 box; other site 557760002437 GTP/Mg2+ binding site [chemical binding]; other site 557760002438 G2 box; other site 557760002439 Switch I region; other site 557760002440 Switch II region; other site 557760002441 G4 box; other site 557760002442 G5 box; other site 557760002443 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557760002444 G1 box; other site 557760002445 GTP/Mg2+ binding site [chemical binding]; other site 557760002446 G2 box; other site 557760002447 Switch I region; other site 557760002448 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557760002449 G3 box; other site 557760002450 Switch II region; other site 557760002451 G4 box; other site 557760002452 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557760002453 G1 box; other site 557760002454 GTP/Mg2+ binding site [chemical binding]; other site 557760002455 G2 box; other site 557760002456 Switch I region; other site 557760002457 G3 box; other site 557760002458 Switch II region; other site 557760002459 G4 box; other site 557760002460 Dynamin family; Region: Dynamin_N; pfam00350 557760002461 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557760002462 G1 box; other site 557760002463 GTP/Mg2+ binding site [chemical binding]; other site 557760002464 G2 box; other site 557760002465 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557760002466 G3 box; other site 557760002467 Switch II region; other site 557760002468 GTP/Mg2+ binding site [chemical binding]; other site 557760002469 G4 box; other site 557760002470 G5 box; other site 557760002471 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557760002472 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557760002473 putative S-transferase; Provisional; Region: PRK11752 557760002474 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 557760002475 C-terminal domain interface [polypeptide binding]; other site 557760002476 GSH binding site (G-site) [chemical binding]; other site 557760002477 dimer interface [polypeptide binding]; other site 557760002478 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 557760002479 dimer interface [polypeptide binding]; other site 557760002480 N-terminal domain interface [polypeptide binding]; other site 557760002481 active site 557760002482 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557760002483 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 557760002484 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557760002485 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 557760002486 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557760002487 ligand binding site [chemical binding]; other site 557760002488 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 557760002489 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760002490 Walker A/P-loop; other site 557760002491 ATP binding site [chemical binding]; other site 557760002492 Q-loop/lid; other site 557760002493 ABC transporter signature motif; other site 557760002494 Walker B; other site 557760002495 D-loop; other site 557760002496 H-loop/switch region; other site 557760002497 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760002498 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760002499 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760002500 TM-ABC transporter signature motif; other site 557760002501 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 557760002502 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760002503 TM-ABC transporter signature motif; other site 557760002504 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 557760002505 active site 557760002506 catalytic residues [active] 557760002507 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760002508 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 557760002509 substrate binding site [chemical binding]; other site 557760002510 dimer interface [polypeptide binding]; other site 557760002511 ATP binding site [chemical binding]; other site 557760002512 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 557760002513 intersubunit interface [polypeptide binding]; other site 557760002514 active site 557760002515 catalytic residue [active] 557760002516 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557760002517 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557760002518 NAD(P) binding site [chemical binding]; other site 557760002519 catalytic residues [active] 557760002520 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557760002521 NAD(P) binding site [chemical binding]; other site 557760002522 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 557760002523 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557760002524 substrate binding pocket [chemical binding]; other site 557760002525 membrane-bound complex binding site; other site 557760002526 hinge residues; other site 557760002527 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 557760002528 agmatinase; Region: agmatinase; TIGR01230 557760002529 oligomer interface [polypeptide binding]; other site 557760002530 putative active site [active] 557760002531 Mn binding site [ion binding]; other site 557760002532 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 557760002533 dimer interface [polypeptide binding]; other site 557760002534 conserved gate region; other site 557760002535 putative PBP binding loops; other site 557760002536 ABC-ATPase subunit interface; other site 557760002537 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557760002538 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557760002539 Walker A/P-loop; other site 557760002540 ATP binding site [chemical binding]; other site 557760002541 Q-loop/lid; other site 557760002542 ABC transporter signature motif; other site 557760002543 Walker B; other site 557760002544 D-loop; other site 557760002545 H-loop/switch region; other site 557760002546 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 557760002547 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 557760002548 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557760002549 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 557760002550 active site 557760002551 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557760002552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760002553 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 557760002554 dimerization interface [polypeptide binding]; other site 557760002555 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 557760002556 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557760002557 Domain of unknown function (DUF305); Region: DUF305; cl17794 557760002558 potential frameshift: common BLAST hit: gi|119385883|ref|YP_916938.1| transposase IS3/IS911 family protein 557760002559 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 557760002560 Mg2+ binding site [ion binding]; other site 557760002561 G-X-G motif; other site 557760002562 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760002563 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 557760002564 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 557760002565 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 557760002566 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 557760002567 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 557760002568 tandem repeat interface [polypeptide binding]; other site 557760002569 oligomer interface [polypeptide binding]; other site 557760002570 active site residues [active] 557760002571 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 557760002572 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 557760002573 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 557760002574 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 557760002575 Bacterial dnaA protein helix-turn-helix domain; Region: Bac_DnaA_C; smart00760 557760002576 DnaA box-binding interface [nucleotide binding]; other site 557760002577 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557760002578 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 557760002579 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 557760002580 non-specific DNA binding site [nucleotide binding]; other site 557760002581 salt bridge; other site 557760002582 sequence-specific DNA binding site [nucleotide binding]; other site 557760002583 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 557760002584 Catalytic site [active] 557760002585 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 557760002586 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557760002587 DNA methylase; Region: N6_N4_Mtase; pfam01555 557760002588 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 557760002589 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 557760002590 active site 557760002591 DNA binding site [nucleotide binding] 557760002592 Int/Topo IB signature motif; other site 557760002593 Transposase; Region: HTH_Tnp_1; cl17663 557760002594 Peptidase M15; Region: Peptidase_M15_3; cl01194 557760002595 Peptidase M15; Region: Peptidase_M15_3; cl01194 557760002596 Protein of unknown function DUF262; Region: DUF262; pfam03235 557760002597 Uncharacterized conserved protein [Function unknown]; Region: COG1479 557760002598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760002599 Transposase; Region: HTH_Tnp_1; pfam01527 557760002600 putative transposase OrfB; Reviewed; Region: PHA02517 557760002601 HTH-like domain; Region: HTH_21; pfam13276 557760002602 Integrase core domain; Region: rve; pfam00665 557760002603 Integrase core domain; Region: rve_3; pfam13683 557760002604 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 557760002605 active site 557760002606 catalytic site [active] 557760002607 substrate binding site [chemical binding]; other site 557760002608 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 557760002609 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 557760002610 active site 557760002611 Int/Topo IB signature motif; other site 557760002612 DNA binding site [nucleotide binding] 557760002613 Helix-turn-helix domain; Region: HTH_17; pfam12728 557760002614 VRR-NUC domain; Region: VRR_NUC; cl17748 557760002615 Helix-turn-helix domain; Region: HTH_36; pfam13730 557760002616 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 557760002617 Domain of unknown function (DUF303); Region: DUF303; pfam03629 557760002618 Uncharacterized conserved protein [Function unknown]; Region: COG1479 557760002619 Protein of unknown function DUF262; Region: DUF262; pfam03235 557760002620 Protein of unknown function DUF262; Region: DUF262; pfam03235 557760002621 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 557760002622 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 557760002623 RES domain; Region: RES; smart00953 557760002624 Predicted helicase [General function prediction only]; Region: COG4889 557760002625 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 557760002626 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 557760002627 ATP binding site [chemical binding]; other site 557760002628 putative Mg++ binding site [ion binding]; other site 557760002629 helicase superfamily c-terminal domain; Region: HELICc; smart00490 557760002630 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 557760002631 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 557760002632 active site 557760002633 catalytic site [active] 557760002634 substrate binding site [chemical binding]; other site 557760002635 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; cl00038 557760002636 Dimer interface [polypeptide binding]; other site 557760002637 potential frameshift: common BLAST hit: gi|209963409|ref|YP_002296324.1| DNA methylase, putative 557760002638 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557760002639 ParB-like nuclease domain; Region: ParBc; pfam02195 557760002640 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557760002641 DNA methylase; Region: N6_N4_Mtase; pfam01555 557760002642 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557760002643 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557760002644 ParB-like nuclease domain; Region: ParBc; pfam02195 557760002645 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557760002646 DNA methylase; Region: N6_N4_Mtase; pfam01555 557760002647 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 557760002648 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 557760002649 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 557760002650 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 557760002651 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 557760002652 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 557760002653 tandem repeat interface [polypeptide binding]; other site 557760002654 oligomer interface [polypeptide binding]; other site 557760002655 active site residues [active] 557760002656 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 557760002657 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 557760002658 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 557760002659 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 557760002660 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 557760002661 metal ion-dependent adhesion site (MIDAS); other site 557760002662 Putative phage tail protein; Region: Phage-tail_3; pfam13550 557760002663 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 557760002664 SPRY domain-like in bacteria; Region: SPRY_like; cd12886 557760002665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 557760002666 Peptidase M15; Region: Peptidase_M15_3; pfam08291 557760002667 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 557760002668 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 557760002669 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 557760002670 putative active site [active] 557760002671 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557760002672 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 557760002673 cofactor binding site; other site 557760002674 DNA binding site [nucleotide binding] 557760002675 substrate interaction site [chemical binding]; other site 557760002676 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557760002677 AAA domain; Region: AAA_22; pfam13401 557760002678 Part of AAA domain; Region: AAA_19; pfam13245 557760002679 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557760002680 Family description; Region: UvrD_C_2; pfam13538 557760002681 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 557760002682 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 557760002683 ATP-binding site [chemical binding]; other site 557760002684 Part of AAA domain; Region: AAA_19; pfam13245 557760002685 Family description; Region: UvrD_C_2; pfam13538 557760002686 AAA domain; Region: AAA_22; pfam13401 557760002687 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 557760002688 ATP binding site [chemical binding]; other site 557760002689 putative Mg++ binding site [ion binding]; other site 557760002690 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 557760002691 nucleotide binding region [chemical binding]; other site 557760002692 ATP-binding site [chemical binding]; other site 557760002693 Initiator Replication protein; Region: Rep_3; pfam01051 557760002694 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 557760002695 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 557760002696 P-loop; other site 557760002697 Magnesium ion binding site [ion binding]; other site 557760002698 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 557760002699 Magnesium ion binding site [ion binding]; other site 557760002700 ParB-like nuclease domain; Region: ParBc; pfam02195 557760002701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557760002702 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 557760002703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 557760002704 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760002705 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 557760002706 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 557760002707 active site 557760002708 catalytic site [active] 557760002709 Zn binding site [ion binding]; other site 557760002710 tetramer interface [polypeptide binding]; other site 557760002711 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 557760002712 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557760002713 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 557760002714 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 557760002715 putative active site [active] 557760002716 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 557760002717 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557760002718 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 557760002719 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760002720 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 557760002721 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 557760002722 Ligand Binding Site [chemical binding]; other site 557760002723 hypothetical protein; Provisional; Region: PRK07483 557760002724 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 557760002725 inhibitor-cofactor binding pocket; inhibition site 557760002726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760002727 catalytic residue [active] 557760002728 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 557760002729 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557760002730 DNA binding site [nucleotide binding] 557760002731 domain linker motif; other site 557760002732 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 557760002733 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557760002734 putative ligand binding site [chemical binding]; other site 557760002735 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760002736 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760002737 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 557760002738 DctM-like transporters; Region: DctM; pfam06808 557760002739 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760002740 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 557760002741 dimer interface [polypeptide binding]; other site 557760002742 substrate binding site [chemical binding]; other site 557760002743 metal binding site [ion binding]; metal-binding site 557760002744 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 557760002745 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 557760002746 dimer interface [polypeptide binding]; other site 557760002747 catalytic residue [active] 557760002748 metal binding site [ion binding]; metal-binding site 557760002749 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 557760002750 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557760002751 Part of AAA domain; Region: AAA_19; pfam13245 557760002752 Family description; Region: UvrD_C_2; pfam13538 557760002753 Domain of unknown function (DUF305); Region: DUF305; cl17794 557760002754 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 557760002755 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 557760002756 Ca2+ binding site [ion binding]; other site 557760002757 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 557760002758 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 557760002759 Ca2+ binding site [ion binding]; other site 557760002760 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 557760002761 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 557760002762 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 557760002763 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 557760002764 Bacterial sugar transferase; Region: Bac_transf; pfam02397 557760002765 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760002766 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 557760002767 NAD binding site [chemical binding]; other site 557760002768 putative substrate binding site 2 [chemical binding]; other site 557760002769 putative substrate binding site 1 [chemical binding]; other site 557760002770 active site 557760002771 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 557760002772 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 557760002773 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 557760002774 Ligand binding site; other site 557760002775 metal-binding site 557760002776 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 557760002777 Right handed beta helix region; Region: Beta_helix; pfam13229 557760002778 Right handed beta helix region; Region: Beta_helix; pfam13229 557760002779 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 557760002780 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 557760002781 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 557760002782 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 557760002783 putative trimer interface [polypeptide binding]; other site 557760002784 putative active site [active] 557760002785 putative substrate binding site [chemical binding]; other site 557760002786 putative CoA binding site [chemical binding]; other site 557760002787 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557760002788 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557760002789 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 557760002790 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 557760002791 inhibitor-cofactor binding pocket; inhibition site 557760002792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760002793 catalytic residue [active] 557760002794 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760002795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760002796 NAD(P) binding site [chemical binding]; other site 557760002797 active site 557760002798 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 557760002799 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 557760002800 inhibitor-cofactor binding pocket; inhibition site 557760002801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760002802 catalytic residue [active] 557760002803 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 557760002804 Chain length determinant protein; Region: Wzz; cl15801 557760002805 Chain length determinant protein; Region: Wzz; cl15801 557760002806 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760002807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760002808 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 557760002809 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 557760002810 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760002811 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 557760002812 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 557760002813 O-Antigen ligase; Region: Wzy_C; pfam04932 557760002814 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 557760002815 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 557760002816 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 557760002817 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760002818 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 557760002819 NAD binding site [chemical binding]; other site 557760002820 homotetramer interface [polypeptide binding]; other site 557760002821 homodimer interface [polypeptide binding]; other site 557760002822 active site 557760002823 substrate binding site [chemical binding]; other site 557760002824 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760002825 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 557760002826 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760002827 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 557760002828 DNA binding residues [nucleotide binding] 557760002829 dimerization interface [polypeptide binding]; other site 557760002830 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 557760002831 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 557760002832 putative trimer interface [polypeptide binding]; other site 557760002833 putative CoA binding site [chemical binding]; other site 557760002834 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557760002835 MarR family; Region: MarR_2; pfam12802 557760002836 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 557760002837 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557760002838 putative substrate translocation pore; other site 557760002839 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 557760002840 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557760002841 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760002842 putative transposase OrfB; Reviewed; Region: PHA02517 557760002843 HTH-like domain; Region: HTH_21; pfam13276 557760002844 Integrase core domain; Region: rve; pfam00665 557760002845 Integrase core domain; Region: rve_3; pfam13683 557760002846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760002847 Transposase; Region: HTH_Tnp_1; cl17663 557760002848 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557760002849 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557760002850 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557760002851 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557760002852 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 557760002853 ABC-ATPase subunit interface; other site 557760002854 dimer interface [polypeptide binding]; other site 557760002855 putative PBP binding regions; other site 557760002856 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 557760002857 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557760002858 intersubunit interface [polypeptide binding]; other site 557760002859 Secretin and TonB N terminus short domain; Region: STN; smart00965 557760002860 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 557760002861 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760002862 N-terminal plug; other site 557760002863 ligand-binding site [chemical binding]; other site 557760002864 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557760002865 FecR protein; Region: FecR; pfam04773 557760002866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760002867 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 557760002868 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 557760002869 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 557760002870 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 557760002871 Trp docking motif [polypeptide binding]; other site 557760002872 putative active site [active] 557760002873 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 557760002874 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 557760002875 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 557760002876 ATP binding site [chemical binding]; other site 557760002877 putative Mg++ binding site [ion binding]; other site 557760002878 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 557760002879 nucleotide binding region [chemical binding]; other site 557760002880 ATP-binding site [chemical binding]; other site 557760002881 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 557760002882 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760002883 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760002884 DctM-like transporters; Region: DctM; pfam06808 557760002885 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760002886 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 557760002887 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 557760002888 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 557760002889 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 557760002890 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 557760002891 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 557760002892 putative NAD(P) binding site [chemical binding]; other site 557760002893 catalytic Zn binding site [ion binding]; other site 557760002894 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 557760002895 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557760002896 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 557760002897 putative active site [active] 557760002898 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760002899 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 557760002900 substrate binding site [chemical binding]; other site 557760002901 ATP binding site [chemical binding]; other site 557760002902 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 557760002903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 557760002904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760002905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760002906 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760002907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760002908 NAD(P) binding site [chemical binding]; other site 557760002909 active site 557760002910 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 557760002911 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760002912 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 557760002913 acyl-activating enzyme (AAE) consensus motif; other site 557760002914 acyl-activating enzyme (AAE) consensus motif; other site 557760002915 putative AMP binding site [chemical binding]; other site 557760002916 putative active site [active] 557760002917 putative CoA binding site [chemical binding]; other site 557760002918 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 557760002919 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 557760002920 putative ligand binding site [chemical binding]; other site 557760002921 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760002922 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 557760002923 TM-ABC transporter signature motif; other site 557760002924 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 557760002925 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 557760002926 TM-ABC transporter signature motif; other site 557760002927 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760002928 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760002929 Walker A/P-loop; other site 557760002930 ATP binding site [chemical binding]; other site 557760002931 Q-loop/lid; other site 557760002932 ABC transporter signature motif; other site 557760002933 Walker B; other site 557760002934 D-loop; other site 557760002935 H-loop/switch region; other site 557760002936 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557760002937 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760002938 Walker A/P-loop; other site 557760002939 ATP binding site [chemical binding]; other site 557760002940 Q-loop/lid; other site 557760002941 ABC transporter signature motif; other site 557760002942 Walker B; other site 557760002943 D-loop; other site 557760002944 H-loop/switch region; other site 557760002945 enoyl-CoA hydratase; Provisional; Region: PRK06495 557760002946 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760002947 substrate binding site [chemical binding]; other site 557760002948 oxyanion hole (OAH) forming residues; other site 557760002949 trimer interface [polypeptide binding]; other site 557760002950 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557760002951 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760002952 substrate binding site [chemical binding]; other site 557760002953 oxyanion hole (OAH) forming residues; other site 557760002954 trimer interface [polypeptide binding]; other site 557760002955 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 557760002956 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557760002957 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 557760002958 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557760002959 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 557760002960 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 557760002961 trimer interface [polypeptide binding]; other site 557760002962 active site 557760002963 substrate binding site [chemical binding]; other site 557760002964 CoA binding site [chemical binding]; other site 557760002965 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760002966 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760002967 DNA-binding site [nucleotide binding]; DNA binding site 557760002968 FCD domain; Region: FCD; pfam07729 557760002969 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760002970 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760002971 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 557760002972 DctM-like transporters; Region: DctM; pfam06808 557760002973 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760002974 galactonate dehydratase; Provisional; Region: PRK14017 557760002975 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 557760002976 active site pocket [active] 557760002977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557760002978 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760002979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760002980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760002981 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 557760002982 putative dimerization interface [polypeptide binding]; other site 557760002983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 557760002984 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 557760002985 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 557760002986 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760002987 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 557760002988 putative C-terminal domain interface [polypeptide binding]; other site 557760002989 putative GSH binding site (G-site) [chemical binding]; other site 557760002990 putative dimer interface [polypeptide binding]; other site 557760002991 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 557760002992 N-terminal domain interface [polypeptide binding]; other site 557760002993 dimer interface [polypeptide binding]; other site 557760002994 substrate binding pocket (H-site) [chemical binding]; other site 557760002995 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760002996 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 557760002997 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760002998 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557760002999 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557760003000 Walker A/P-loop; other site 557760003001 ATP binding site [chemical binding]; other site 557760003002 Q-loop/lid; other site 557760003003 ABC transporter signature motif; other site 557760003004 Walker B; other site 557760003005 D-loop; other site 557760003006 H-loop/switch region; other site 557760003007 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557760003008 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 557760003009 dimer interface [polypeptide binding]; other site 557760003010 conserved gate region; other site 557760003011 putative PBP binding loops; other site 557760003012 ABC-ATPase subunit interface; other site 557760003013 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 557760003014 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 557760003015 conserved gate region; other site 557760003016 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 557760003017 putative PBP binding loops; other site 557760003018 dimer interface [polypeptide binding]; other site 557760003019 ABC-ATPase subunit interface; other site 557760003020 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 557760003021 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 557760003022 substrate binding pocket [chemical binding]; other site 557760003023 membrane-bound complex binding site; other site 557760003024 hinge residues; other site 557760003025 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 557760003026 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 557760003027 homodimer interface [polypeptide binding]; other site 557760003028 substrate-cofactor binding pocket; other site 557760003029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760003030 catalytic residue [active] 557760003031 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760003032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003033 DNA-binding site [nucleotide binding]; DNA binding site 557760003034 FCD domain; Region: FCD; pfam07729 557760003035 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760003036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003037 DNA-binding site [nucleotide binding]; DNA binding site 557760003038 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557760003039 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 557760003040 Predicted transcriptional regulators [Transcription]; Region: COG1378 557760003041 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 557760003042 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 557760003043 C-terminal domain interface [polypeptide binding]; other site 557760003044 sugar binding site [chemical binding]; other site 557760003045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557760003046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 557760003047 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 557760003048 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 557760003049 L-aspartate oxidase; Provisional; Region: PRK06175 557760003050 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557760003051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 557760003052 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 557760003053 Chromate transporter; Region: Chromate_transp; pfam02417 557760003054 Chromate transporter; Region: Chromate_transp; pfam02417 557760003055 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760003056 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760003057 Walker A/P-loop; other site 557760003058 ATP binding site [chemical binding]; other site 557760003059 Q-loop/lid; other site 557760003060 ABC transporter signature motif; other site 557760003061 Walker B; other site 557760003062 D-loop; other site 557760003063 H-loop/switch region; other site 557760003064 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760003065 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 557760003066 dimer interface [polypeptide binding]; other site 557760003067 conserved gate region; other site 557760003068 putative PBP binding loops; other site 557760003069 ABC-ATPase subunit interface; other site 557760003070 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760003071 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 557760003072 dimer interface [polypeptide binding]; other site 557760003073 conserved gate region; other site 557760003074 putative PBP binding loops; other site 557760003075 ABC-ATPase subunit interface; other site 557760003076 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 557760003077 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 557760003078 tricarballylate dehydrogenase; Validated; Region: PRK08274 557760003079 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 557760003080 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 557760003081 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 557760003082 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 557760003083 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 557760003084 active site 557760003085 intersubunit interface [polypeptide binding]; other site 557760003086 catalytic residue [active] 557760003087 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760003088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003089 DNA-binding site [nucleotide binding]; DNA binding site 557760003090 FCD domain; Region: FCD; pfam07729 557760003091 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 557760003092 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 557760003093 DctM-like transporters; Region: DctM; pfam06808 557760003094 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 557760003095 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760003096 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 557760003097 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 557760003098 putative NAD(P) binding site [chemical binding]; other site 557760003099 catalytic Zn binding site [ion binding]; other site 557760003100 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 557760003101 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 557760003102 NADP binding site [chemical binding]; other site 557760003103 homodimer interface [polypeptide binding]; other site 557760003104 active site 557760003105 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 557760003106 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 557760003107 active site pocket [active] 557760003108 galactonate dehydratase; Provisional; Region: PRK14017 557760003109 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 557760003110 putative active site pocket [active] 557760003111 putative metal binding site [ion binding]; other site 557760003112 Animal prostaglandin endoperoxide synthase and related bacterial proteins; Region: prostaglandin_endoperoxide_synthase; cd09816 557760003113 substrate binding site [chemical binding]; other site 557760003114 homodimer interface [polypeptide binding]; other site 557760003115 heme binding site [chemical binding]; other site 557760003116 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 557760003117 Cytochrome P450; Region: p450; cl12078 557760003118 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 557760003119 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760003120 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 557760003121 DNA binding residues [nucleotide binding] 557760003122 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557760003123 FecR protein; Region: FecR; pfam04773 557760003124 Secretin and TonB N terminus short domain; Region: STN; smart00965 557760003125 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557760003126 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760003127 N-terminal plug; other site 557760003128 ligand-binding site [chemical binding]; other site 557760003129 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557760003130 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557760003131 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 557760003132 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557760003133 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 557760003134 intersubunit interface [polypeptide binding]; other site 557760003135 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 557760003136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760003137 Walker A/P-loop; other site 557760003138 ATP binding site [chemical binding]; other site 557760003139 Q-loop/lid; other site 557760003140 ABC transporter signature motif; other site 557760003141 Walker B; other site 557760003142 D-loop; other site 557760003143 H-loop/switch region; other site 557760003144 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557760003145 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557760003146 ABC-ATPase subunit interface; other site 557760003147 dimer interface [polypeptide binding]; other site 557760003148 putative PBP binding regions; other site 557760003149 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557760003150 Cysteine-rich small domain; Region: zf-like; cl00946 557760003151 cobyric acid synthase; Provisional; Region: PRK00784 557760003152 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760003153 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557760003154 catalytic triad [active] 557760003155 cobyric acid synthase; Provisional; Region: PRK00784 557760003156 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760003157 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760003158 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557760003159 catalytic triad [active] 557760003160 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 557760003161 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 557760003162 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 557760003163 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 557760003164 DNA binding residues [nucleotide binding] 557760003165 putative dimer interface [polypeptide binding]; other site 557760003166 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557760003167 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 557760003168 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557760003169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760003170 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557760003171 putative effector binding pocket; other site 557760003172 dimerization interface [polypeptide binding]; other site 557760003173 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 557760003174 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 557760003175 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 557760003176 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 557760003177 Helix-turn-helix domain; Region: HTH_17; pfam12728 557760003178 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 557760003179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760003180 NAD(P) binding site [chemical binding]; other site 557760003181 active site 557760003182 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 557760003183 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 557760003184 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557760003185 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 557760003186 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557760003187 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 557760003188 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557760003189 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 557760003190 substrate binding pocket [chemical binding]; other site 557760003191 membrane-bound complex binding site; other site 557760003192 hinge residues; other site 557760003193 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 557760003194 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 557760003195 dimer interface [polypeptide binding]; other site 557760003196 PYR/PP interface [polypeptide binding]; other site 557760003197 TPP binding site [chemical binding]; other site 557760003198 substrate binding site [chemical binding]; other site 557760003199 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 557760003200 TPP-binding site [chemical binding]; other site 557760003201 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 557760003202 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557760003203 FAD binding domain; Region: FAD_binding_4; pfam01565 557760003204 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 557760003205 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 557760003206 NADP binding site [chemical binding]; other site 557760003207 dimer interface [polypeptide binding]; other site 557760003208 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557760003209 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760003210 substrate binding site [chemical binding]; other site 557760003211 oxyanion hole (OAH) forming residues; other site 557760003212 trimer interface [polypeptide binding]; other site 557760003213 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760003214 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760003215 acyl-activating enzyme (AAE) consensus motif; other site 557760003216 AMP binding site [chemical binding]; other site 557760003217 active site 557760003218 CoA binding site [chemical binding]; other site 557760003219 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760003220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003221 DNA-binding site [nucleotide binding]; DNA binding site 557760003222 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557760003223 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760003224 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 557760003225 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760003226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760003227 Walker A/P-loop; other site 557760003228 ATP binding site [chemical binding]; other site 557760003229 Q-loop/lid; other site 557760003230 ABC transporter signature motif; other site 557760003231 Walker B; other site 557760003232 D-loop; other site 557760003233 H-loop/switch region; other site 557760003234 TOBE domain; Region: TOBE_2; pfam08402 557760003235 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760003236 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 557760003237 dimer interface [polypeptide binding]; other site 557760003238 conserved gate region; other site 557760003239 putative PBP binding loops; other site 557760003240 ABC-ATPase subunit interface; other site 557760003241 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760003242 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 557760003243 dimer interface [polypeptide binding]; other site 557760003244 conserved gate region; other site 557760003245 putative PBP binding loops; other site 557760003246 ABC-ATPase subunit interface; other site 557760003247 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 557760003248 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557760003249 PYR/PP interface [polypeptide binding]; other site 557760003250 dimer interface [polypeptide binding]; other site 557760003251 TPP binding site [chemical binding]; other site 557760003252 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557760003253 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 557760003254 TPP-binding site [chemical binding]; other site 557760003255 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760003256 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 557760003257 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760003258 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 557760003259 dimer interface [polypeptide binding]; other site 557760003260 conserved gate region; other site 557760003261 putative PBP binding loops; other site 557760003262 ABC-ATPase subunit interface; other site 557760003263 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760003264 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 557760003265 putative PBP binding loops; other site 557760003266 dimer interface [polypeptide binding]; other site 557760003267 ABC-ATPase subunit interface; other site 557760003268 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 557760003269 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557760003270 Walker A/P-loop; other site 557760003271 ATP binding site [chemical binding]; other site 557760003272 Q-loop/lid; other site 557760003273 ABC transporter signature motif; other site 557760003274 Walker B; other site 557760003275 D-loop; other site 557760003276 H-loop/switch region; other site 557760003277 TOBE domain; Region: TOBE_2; pfam08402 557760003278 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 557760003279 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557760003280 Walker A/P-loop; other site 557760003281 ATP binding site [chemical binding]; other site 557760003282 Q-loop/lid; other site 557760003283 ABC transporter signature motif; other site 557760003284 Walker B; other site 557760003285 D-loop; other site 557760003286 H-loop/switch region; other site 557760003287 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 557760003288 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 557760003289 putative N- and C-terminal domain interface [polypeptide binding]; other site 557760003290 putative active site [active] 557760003291 MgATP binding site [chemical binding]; other site 557760003292 catalytic site [active] 557760003293 metal binding site [ion binding]; metal-binding site 557760003294 putative xylulose binding site [chemical binding]; other site 557760003295 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 557760003296 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557760003297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003298 DNA-binding site [nucleotide binding]; DNA binding site 557760003299 UTRA domain; Region: UTRA; pfam07702 557760003300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760003301 classical (c) SDRs; Region: SDR_c; cd05233 557760003302 NAD(P) binding site [chemical binding]; other site 557760003303 active site 557760003304 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 557760003305 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 557760003306 PYR/PP interface [polypeptide binding]; other site 557760003307 dimer interface [polypeptide binding]; other site 557760003308 TPP binding site [chemical binding]; other site 557760003309 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557760003310 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 557760003311 TPP-binding site [chemical binding]; other site 557760003312 dimer interface [polypeptide binding]; other site 557760003313 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760003314 classical (c) SDRs; Region: SDR_c; cd05233 557760003315 NAD(P) binding site [chemical binding]; other site 557760003316 active site 557760003317 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557760003318 DctM-like transporters; Region: DctM; pfam06808 557760003319 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760003320 Lysine efflux permease [General function prediction only]; Region: COG1279 557760003321 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 557760003322 Rrf2 family protein; Region: rrf2_super; TIGR00738 557760003323 Transcriptional regulator; Region: Rrf2; pfam02082 557760003324 putative outer membrane receptor; Provisional; Region: PRK13513 557760003325 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 557760003326 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 557760003327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760003328 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 557760003329 Walker A/P-loop; other site 557760003330 ATP binding site [chemical binding]; other site 557760003331 Q-loop/lid; other site 557760003332 ABC transporter signature motif; other site 557760003333 Walker B; other site 557760003334 D-loop; other site 557760003335 H-loop/switch region; other site 557760003336 TOBE domain; Region: TOBE; pfam03459 557760003337 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557760003338 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 557760003339 dimer interface [polypeptide binding]; other site 557760003340 conserved gate region; other site 557760003341 putative PBP binding loops; other site 557760003342 ABC-ATPase subunit interface; other site 557760003343 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557760003344 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760003345 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 557760003346 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 557760003347 molybdenum transport protein ModD; Provisional; Region: PRK06096 557760003348 dimerization interface [polypeptide binding]; other site 557760003349 active site 557760003350 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 557760003351 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 557760003352 molybdenum-pterin binding domain; Region: Mop; TIGR00638 557760003353 molybdenum-pterin binding domain; Region: Mop; TIGR00638 557760003354 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760003355 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557760003356 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 557760003357 active site 557760003358 catalytic residues [active] 557760003359 flagellin; Reviewed; Region: PRK12687 557760003360 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 557760003361 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 557760003362 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 557760003363 Flagellar protein FlbT; Region: FlbT; pfam07378 557760003364 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 557760003365 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 557760003366 Rhamnan synthesis protein F; Region: RgpF; pfam05045 557760003367 Rhamnan synthesis protein F; Region: RgpF; pfam05045 557760003368 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557760003369 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 557760003370 active site 557760003371 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557760003372 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 557760003373 active site 557760003374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 557760003375 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760003376 Transposase; Region: HTH_Tnp_1; cl17663 557760003377 putative transposase OrfB; Reviewed; Region: PHA02517 557760003378 HTH-like domain; Region: HTH_21; pfam13276 557760003379 Integrase core domain; Region: rve; pfam00665 557760003380 Integrase core domain; Region: rve_3; pfam13683 557760003381 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 557760003382 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 557760003383 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 557760003384 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557760003385 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557760003386 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557760003387 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557760003388 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 557760003389 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557760003390 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 557760003391 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 557760003392 Ligand Binding Site [chemical binding]; other site 557760003393 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 557760003394 Ligand Binding Site [chemical binding]; other site 557760003395 Protein of unknown function, DUF606; Region: DUF606; pfam04657 557760003396 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760003397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760003398 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 557760003399 putative substrate binding pocket [chemical binding]; other site 557760003400 putative dimerization interface [polypeptide binding]; other site 557760003401 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557760003402 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557760003403 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557760003404 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557760003405 RHS Repeat; Region: RHS_repeat; cl11982 557760003406 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557760003407 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557760003408 potential frameshift: common BLAST hit: gi|126464471|ref|YP_001045584.1| transposase, IS4 family protein 557760003409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557760003410 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 557760003411 core domain interface [polypeptide binding]; other site 557760003412 delta subunit interface [polypeptide binding]; other site 557760003413 epsilon subunit interface [polypeptide binding]; other site 557760003414 potential frameshift: common BLAST hit: gi|125654676|ref|YP_001033870.1| H+-transporting two-sector ATPase, alpha/beta subunit 557760003415 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 557760003416 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557760003417 Walker A motif; other site 557760003418 ATP binding site [chemical binding]; other site 557760003419 Walker B motif; other site 557760003420 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 557760003421 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 557760003422 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 557760003423 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 557760003424 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 557760003425 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 557760003426 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 557760003427 gamma subunit interface [polypeptide binding]; other site 557760003428 epsilon subunit interface [polypeptide binding]; other site 557760003429 LBP interface [polypeptide binding]; other site 557760003430 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 557760003431 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557760003432 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 557760003433 alpha subunit interaction interface [polypeptide binding]; other site 557760003434 Walker A motif; other site 557760003435 ATP binding site [chemical binding]; other site 557760003436 Walker B motif; other site 557760003437 inhibitor binding site; inhibition site 557760003438 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557760003439 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760003440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760003441 NAD(P) binding site [chemical binding]; other site 557760003442 active site 557760003443 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557760003444 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 557760003445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 557760003446 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 557760003447 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 557760003448 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 557760003449 putative ligand binding site [chemical binding]; other site 557760003450 putative catalytic site [active] 557760003451 ABC-2 type transporter; Region: ABC2_membrane; cl17235 557760003452 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 557760003453 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 557760003454 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 557760003455 Walker A/P-loop; other site 557760003456 ATP binding site [chemical binding]; other site 557760003457 Q-loop/lid; other site 557760003458 ABC transporter signature motif; other site 557760003459 Walker B; other site 557760003460 D-loop; other site 557760003461 H-loop/switch region; other site 557760003462 ParB-like nuclease domain; Region: ParBc; pfam02195 557760003463 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 557760003464 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 557760003465 P-loop; other site 557760003466 Magnesium ion binding site [ion binding]; other site 557760003467 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 557760003468 Magnesium ion binding site [ion binding]; other site 557760003469 Replication initiator protein A; Region: RPA; pfam10134 557760003470 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557760003471 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 557760003472 active site 557760003473 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 557760003474 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 557760003475 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 557760003476 NAD binding site [chemical binding]; other site 557760003477 substrate binding site [chemical binding]; other site 557760003478 homodimer interface [polypeptide binding]; other site 557760003479 active site 557760003480 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 557760003481 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 557760003482 NADP binding site [chemical binding]; other site 557760003483 active site 557760003484 putative substrate binding site [chemical binding]; other site 557760003485 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 557760003486 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 557760003487 substrate binding site; other site 557760003488 tetramer interface; other site 557760003489 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 557760003490 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557760003491 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 557760003492 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 557760003493 S-adenosylmethionine binding site [chemical binding]; other site 557760003494 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557760003495 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 557760003496 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760003497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760003498 Walker A/P-loop; other site 557760003499 ATP binding site [chemical binding]; other site 557760003500 Q-loop/lid; other site 557760003501 ABC transporter signature motif; other site 557760003502 Walker B; other site 557760003503 D-loop; other site 557760003504 H-loop/switch region; other site 557760003505 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 557760003506 Calx-beta domain; Region: Calx-beta; cl02522 557760003507 Calx-beta domain; Region: Calx-beta; cl02522 557760003508 Calx-beta domain; Region: Calx-beta; cl02522 557760003509 Calx-beta domain; Region: Calx-beta; cl02522 557760003510 Calx-beta domain; Region: Calx-beta; cl02522 557760003511 Calx-beta domain; Region: Calx-beta; pfam03160 557760003512 UPF0126 domain; Region: UPF0126; pfam03458 557760003513 Predicted membrane protein [Function unknown]; Region: COG2860 557760003514 UPF0126 domain; Region: UPF0126; pfam03458 557760003515 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760003516 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 557760003517 dimerization interface [polypeptide binding]; other site 557760003518 putative DNA binding site [nucleotide binding]; other site 557760003519 putative Zn2+ binding site [ion binding]; other site 557760003520 AsnC family; Region: AsnC_trans_reg; pfam01037 557760003521 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 557760003522 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 557760003523 Walker A/P-loop; other site 557760003524 ATP binding site [chemical binding]; other site 557760003525 Q-loop/lid; other site 557760003526 ABC transporter signature motif; other site 557760003527 Walker B; other site 557760003528 D-loop; other site 557760003529 H-loop/switch region; other site 557760003530 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 557760003531 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557760003532 dimer interface [polypeptide binding]; other site 557760003533 conserved gate region; other site 557760003534 putative PBP binding loops; other site 557760003535 ABC-ATPase subunit interface; other site 557760003536 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557760003537 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 557760003538 dimer interface [polypeptide binding]; other site 557760003539 conserved gate region; other site 557760003540 putative PBP binding loops; other site 557760003541 ABC-ATPase subunit interface; other site 557760003542 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 557760003543 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557760003544 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 557760003545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760003546 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 557760003547 dimerization interface [polypeptide binding]; other site 557760003548 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557760003549 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557760003550 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557760003551 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760003552 classical (c) SDRs; Region: SDR_c; cd05233 557760003553 NAD(P) binding site [chemical binding]; other site 557760003554 active site 557760003555 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557760003556 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760003557 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 557760003558 dimerization interface [polypeptide binding]; other site 557760003559 substrate binding pocket [chemical binding]; other site 557760003560 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557760003561 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760003562 active site 557760003563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760003564 NAD(P) binding site [chemical binding]; other site 557760003565 active site 557760003566 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 557760003567 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 557760003568 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 557760003569 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 557760003570 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557760003571 active sites [active] 557760003572 tetramer interface [polypeptide binding]; other site 557760003573 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760003574 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 557760003575 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557760003576 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 557760003577 dimer interface [polypeptide binding]; other site 557760003578 conserved gate region; other site 557760003579 putative PBP binding loops; other site 557760003580 ABC-ATPase subunit interface; other site 557760003581 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557760003582 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 557760003583 dimer interface [polypeptide binding]; other site 557760003584 conserved gate region; other site 557760003585 putative PBP binding loops; other site 557760003586 ABC-ATPase subunit interface; other site 557760003587 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 557760003588 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557760003589 substrate binding pocket [chemical binding]; other site 557760003590 membrane-bound complex binding site; other site 557760003591 hinge residues; other site 557760003592 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557760003593 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557760003594 Walker A/P-loop; other site 557760003595 ATP binding site [chemical binding]; other site 557760003596 Q-loop/lid; other site 557760003597 ABC transporter signature motif; other site 557760003598 Walker B; other site 557760003599 D-loop; other site 557760003600 H-loop/switch region; other site 557760003601 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 557760003602 active site 557760003603 homotetramer interface [polypeptide binding]; other site 557760003604 homodimer interface [polypeptide binding]; other site 557760003605 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557760003606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003607 DNA-binding site [nucleotide binding]; DNA binding site 557760003608 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 557760003609 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557760003610 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760003611 Walker A/P-loop; other site 557760003612 ATP binding site [chemical binding]; other site 557760003613 Q-loop/lid; other site 557760003614 ABC transporter signature motif; other site 557760003615 Walker B; other site 557760003616 D-loop; other site 557760003617 H-loop/switch region; other site 557760003618 TOBE domain; Region: TOBE_2; pfam08402 557760003619 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760003620 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760003621 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 557760003622 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760003623 substrate binding site [chemical binding]; other site 557760003624 ATP binding site [chemical binding]; other site 557760003625 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 557760003626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760003627 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 557760003628 dimer interface [polypeptide binding]; other site 557760003629 conserved gate region; other site 557760003630 putative PBP binding loops; other site 557760003631 ABC-ATPase subunit interface; other site 557760003632 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760003633 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 557760003634 dimer interface [polypeptide binding]; other site 557760003635 conserved gate region; other site 557760003636 putative PBP binding loops; other site 557760003637 ABC-ATPase subunit interface; other site 557760003638 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760003639 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760003640 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 557760003641 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 557760003642 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557760003643 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 557760003644 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 557760003645 dimerization interface [polypeptide binding]; other site 557760003646 ligand binding site [chemical binding]; other site 557760003647 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557760003648 FAD binding domain; Region: FAD_binding_4; pfam01565 557760003649 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760003650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003651 DNA-binding site [nucleotide binding]; DNA binding site 557760003652 FCD domain; Region: FCD; pfam07729 557760003653 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 557760003654 active site 557760003655 catalytic residue [active] 557760003656 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 557760003657 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557760003658 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 557760003659 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 557760003660 molybdopterin cofactor binding site [chemical binding]; other site 557760003661 substrate binding site [chemical binding]; other site 557760003662 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 557760003663 molybdopterin cofactor binding site; other site 557760003664 hypothetical protein; Validated; Region: PRK07586 557760003665 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557760003666 PYR/PP interface [polypeptide binding]; other site 557760003667 dimer interface [polypeptide binding]; other site 557760003668 TPP binding site [chemical binding]; other site 557760003669 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 557760003670 TPP-binding site [chemical binding]; other site 557760003671 dimer interface [polypeptide binding]; other site 557760003672 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 557760003673 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 557760003674 putative N- and C-terminal domain interface [polypeptide binding]; other site 557760003675 putative active site [active] 557760003676 MgATP binding site [chemical binding]; other site 557760003677 catalytic site [active] 557760003678 metal binding site [ion binding]; metal-binding site 557760003679 putative xylulose binding site [chemical binding]; other site 557760003680 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 557760003681 intersubunit interface [polypeptide binding]; other site 557760003682 active site 557760003683 Zn2+ binding site [ion binding]; other site 557760003684 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 557760003685 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 557760003686 putative ligand binding site [chemical binding]; other site 557760003687 putative NAD binding site [chemical binding]; other site 557760003688 catalytic site [active] 557760003689 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557760003690 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557760003691 Coenzyme A transferase; Region: CoA_trans; smart00882 557760003692 Coenzyme A transferase; Region: CoA_trans; smart00882 557760003693 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760003694 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 557760003695 Walker A/P-loop; other site 557760003696 ATP binding site [chemical binding]; other site 557760003697 Q-loop/lid; other site 557760003698 ABC transporter signature motif; other site 557760003699 Walker B; other site 557760003700 D-loop; other site 557760003701 H-loop/switch region; other site 557760003702 TOBE domain; Region: TOBE_2; pfam08402 557760003703 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557760003704 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 557760003705 dimer interface [polypeptide binding]; other site 557760003706 conserved gate region; other site 557760003707 putative PBP binding loops; other site 557760003708 ABC-ATPase subunit interface; other site 557760003709 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760003710 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 557760003711 dimer interface [polypeptide binding]; other site 557760003712 conserved gate region; other site 557760003713 putative PBP binding loops; other site 557760003714 ABC-ATPase subunit interface; other site 557760003715 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760003716 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760003717 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557760003718 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557760003719 Bacterial transcriptional regulator; Region: IclR; pfam01614 557760003720 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 557760003721 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557760003722 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 557760003723 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557760003724 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760003725 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760003726 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 557760003727 dimer interface [polypeptide binding]; other site 557760003728 conserved gate region; other site 557760003729 putative PBP binding loops; other site 557760003730 ABC-ATPase subunit interface; other site 557760003731 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760003732 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 557760003733 dimer interface [polypeptide binding]; other site 557760003734 conserved gate region; other site 557760003735 putative PBP binding loops; other site 557760003736 ABC-ATPase subunit interface; other site 557760003737 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557760003738 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760003739 Walker A/P-loop; other site 557760003740 ATP binding site [chemical binding]; other site 557760003741 Q-loop/lid; other site 557760003742 ABC transporter signature motif; other site 557760003743 Walker B; other site 557760003744 D-loop; other site 557760003745 H-loop/switch region; other site 557760003746 TOBE domain; Region: TOBE_2; pfam08402 557760003747 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557760003748 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 557760003749 putative NAD(P) binding site [chemical binding]; other site 557760003750 catalytic Zn binding site [ion binding]; other site 557760003751 succinic semialdehyde dehydrogenase; Region: PLN02278 557760003752 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 557760003753 tetramerization interface [polypeptide binding]; other site 557760003754 NAD(P) binding site [chemical binding]; other site 557760003755 catalytic residues [active] 557760003756 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 557760003757 tartrate dehydrogenase; Region: TTC; TIGR02089 557760003758 Class I aldolases; Region: Aldolase_Class_I; cl17187 557760003759 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 557760003760 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760003761 substrate binding site [chemical binding]; other site 557760003762 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760003763 ATP binding site [chemical binding]; other site 557760003764 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557760003765 Right handed beta helix region; Region: Beta_helix; pfam13229 557760003766 Right handed beta helix region; Region: Beta_helix; pfam13229 557760003767 Putative ammonia monooxygenase; Region: AmoA; pfam05145 557760003768 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 557760003769 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 557760003770 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557760003771 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557760003772 classical (c) SDRs; Region: SDR_c; cd05233 557760003773 NAD(P) binding site [chemical binding]; other site 557760003774 active site 557760003775 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 557760003776 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760003777 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 557760003778 MerR family regulatory protein; Region: MerR; pfam00376 557760003779 DNA binding residues [nucleotide binding] 557760003780 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 557760003781 P-loop; other site 557760003782 Magnesium ion binding site [ion binding]; other site 557760003783 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760003784 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 557760003785 ParB-like nuclease domain; Region: ParBc; pfam02195 557760003786 replication initiation protein RepC; Provisional; Region: PRK13824 557760003787 Replication protein C N-terminal domain; Region: RP-C; pfam03428 557760003788 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 557760003789 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557760003790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003791 DNA-binding site [nucleotide binding]; DNA binding site 557760003792 UTRA domain; Region: UTRA; pfam07702 557760003793 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760003794 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760003795 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 557760003796 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557760003797 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 557760003798 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 557760003799 tetramer interface [polypeptide binding]; other site 557760003800 active site 557760003801 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557760003802 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 557760003803 tetramer interface [polypeptide binding]; other site 557760003804 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 557760003805 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 557760003806 putative active site pocket [active] 557760003807 metal binding site [ion binding]; metal-binding site 557760003808 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557760003809 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 557760003810 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 557760003811 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 557760003812 tetramer interface [polypeptide binding]; other site 557760003813 active site 557760003814 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760003815 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 557760003816 dimer interface [polypeptide binding]; other site 557760003817 conserved gate region; other site 557760003818 putative PBP binding loops; other site 557760003819 ABC-ATPase subunit interface; other site 557760003820 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 557760003821 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 557760003822 dimer interface [polypeptide binding]; other site 557760003823 conserved gate region; other site 557760003824 putative PBP binding loops; other site 557760003825 ABC-ATPase subunit interface; other site 557760003826 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760003827 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 557760003828 Walker A/P-loop; other site 557760003829 ATP binding site [chemical binding]; other site 557760003830 Q-loop/lid; other site 557760003831 ABC transporter signature motif; other site 557760003832 Walker B; other site 557760003833 D-loop; other site 557760003834 H-loop/switch region; other site 557760003835 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760003836 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760003837 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 557760003838 Walker A/P-loop; other site 557760003839 ATP binding site [chemical binding]; other site 557760003840 Q-loop/lid; other site 557760003841 ABC transporter signature motif; other site 557760003842 Walker B; other site 557760003843 D-loop; other site 557760003844 H-loop/switch region; other site 557760003845 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760003846 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760003847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760003848 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 557760003849 dimerization interface [polypeptide binding]; other site 557760003850 PAS domain; Region: PAS_9; pfam13426 557760003851 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760003852 PAS domain; Region: PAS_9; pfam13426 557760003853 putative active site [active] 557760003854 heme pocket [chemical binding]; other site 557760003855 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557760003856 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760003857 putative active site [active] 557760003858 heme pocket [chemical binding]; other site 557760003859 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760003860 PAS fold; Region: PAS_3; pfam08447 557760003861 putative active site [active] 557760003862 heme pocket [chemical binding]; other site 557760003863 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760003864 PAS fold; Region: PAS_3; pfam08447 557760003865 putative active site [active] 557760003866 heme pocket [chemical binding]; other site 557760003867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760003868 HWE histidine kinase; Region: HWE_HK; smart00911 557760003869 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557760003870 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557760003871 PAS fold; Region: PAS_7; pfam12860 557760003872 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760003873 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760003874 metal binding site [ion binding]; metal-binding site 557760003875 active site 557760003876 I-site; other site 557760003877 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 557760003878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760003879 DNA-binding site [nucleotide binding]; DNA binding site 557760003880 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 557760003881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760003882 homodimer interface [polypeptide binding]; other site 557760003883 catalytic residue [active] 557760003884 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760003885 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760003886 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557760003887 DctM-like transporters; Region: DctM; pfam06808 557760003888 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760003889 SnoaL-like domain; Region: SnoaL_2; pfam12680 557760003890 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760003891 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760003892 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 557760003893 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557760003894 PYR/PP interface [polypeptide binding]; other site 557760003895 dimer interface [polypeptide binding]; other site 557760003896 TPP binding site [chemical binding]; other site 557760003897 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557760003898 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 557760003899 TPP-binding site [chemical binding]; other site 557760003900 Predicted membrane protein [Function unknown]; Region: COG2855 557760003901 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 557760003902 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 557760003903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760003904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760003905 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760003906 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760003907 response regulator; Provisional; Region: PRK13435 557760003908 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 557760003909 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 557760003910 active site 557760003911 Predicted membrane protein [Function unknown]; Region: COG2323 557760003912 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 557760003913 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 557760003914 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 557760003915 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760003916 UDP-glucose 4-epimerase (G4E), subgroup 5, extended (e) SDRs; Region: UDP_G4E_5_SDR_e; cd05264 557760003917 putative NAD(P) binding site [chemical binding]; other site 557760003918 active site 557760003919 putative substrate binding site [chemical binding]; other site 557760003920 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 557760003921 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 557760003922 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760003923 Rhamnan synthesis protein F; Region: RgpF; pfam05045 557760003924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 557760003925 circadian clock protein KaiC; Reviewed; Region: PRK09302 557760003926 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557760003927 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557760003928 Walker A motif; other site 557760003929 Walker A motif; other site 557760003930 ATP binding site [chemical binding]; other site 557760003931 Walker B motif; other site 557760003932 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557760003933 Walker A motif; other site 557760003934 ATP binding site [chemical binding]; other site 557760003935 Walker B motif; other site 557760003936 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 557760003937 tetramer interface [polypeptide binding]; other site 557760003938 dimer interface [polypeptide binding]; other site 557760003939 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760003940 HWE histidine kinase; Region: HWE_HK; pfam07536 557760003941 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 557760003942 Ligand Binding Site [chemical binding]; other site 557760003943 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557760003944 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 557760003945 FAD binding pocket [chemical binding]; other site 557760003946 FAD binding motif [chemical binding]; other site 557760003947 phosphate binding motif [ion binding]; other site 557760003948 beta-alpha-beta structure motif; other site 557760003949 NAD binding pocket [chemical binding]; other site 557760003950 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 557760003951 catalytic loop [active] 557760003952 iron binding site [ion binding]; other site 557760003953 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557760003954 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 557760003955 [2Fe-2S] cluster binding site [ion binding]; other site 557760003956 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 557760003957 putative alpha subunit interface [polypeptide binding]; other site 557760003958 putative active site [active] 557760003959 putative substrate binding site [chemical binding]; other site 557760003960 Fe binding site [ion binding]; other site 557760003961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760003962 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557760003963 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 557760003964 dimerization interface [polypeptide binding]; other site 557760003965 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557760003966 Domain of unknown function (DUF892); Region: DUF892; pfam05974 557760003967 Domain of unknown function (DUF378); Region: DUF378; pfam04070 557760003968 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 557760003969 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 557760003970 4Fe-4S binding domain; Region: Fer4_5; pfam12801 557760003971 nitrous-oxide reductase; Validated; Region: PRK02888 557760003972 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557760003973 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 557760003974 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 557760003975 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 557760003976 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557760003977 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557760003978 Walker A/P-loop; other site 557760003979 ATP binding site [chemical binding]; other site 557760003980 Q-loop/lid; other site 557760003981 ABC transporter signature motif; other site 557760003982 Walker B; other site 557760003983 D-loop; other site 557760003984 H-loop/switch region; other site 557760003985 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 557760003986 NosL; Region: NosL; pfam05573 557760003987 ApbE family; Region: ApbE; pfam02424 557760003988 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 557760003989 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760003990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760003991 active site 557760003992 phosphorylation site [posttranslational modification] 557760003993 intermolecular recognition site; other site 557760003994 dimerization interface [polypeptide binding]; other site 557760003995 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 557760003996 DNA binding site [nucleotide binding] 557760003997 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760003998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760003999 ATP binding site [chemical binding]; other site 557760004000 Mg2+ binding site [ion binding]; other site 557760004001 G-X-G motif; other site 557760004002 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 557760004003 TPP-binding site [chemical binding]; other site 557760004004 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 557760004005 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 557760004006 PYR/PP interface [polypeptide binding]; other site 557760004007 dimer interface [polypeptide binding]; other site 557760004008 TPP binding site [chemical binding]; other site 557760004009 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 557760004010 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760004011 putative DNA binding site [nucleotide binding]; other site 557760004012 putative Zn2+ binding site [ion binding]; other site 557760004013 AsnC family; Region: AsnC_trans_reg; pfam01037 557760004014 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 557760004015 classical (c) SDRs; Region: SDR_c; cd05233 557760004016 NAD(P) binding site [chemical binding]; other site 557760004017 active site 557760004018 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760004019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760004020 DNA-binding site [nucleotide binding]; DNA binding site 557760004021 FCD domain; Region: FCD; pfam07729 557760004022 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 557760004023 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557760004024 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557760004025 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 557760004026 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760004027 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 557760004028 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760004029 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 557760004030 TM-ABC transporter signature motif; other site 557760004031 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760004032 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 557760004033 TM-ABC transporter signature motif; other site 557760004034 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760004035 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760004036 Walker A/P-loop; other site 557760004037 ATP binding site [chemical binding]; other site 557760004038 Q-loop/lid; other site 557760004039 ABC transporter signature motif; other site 557760004040 Walker B; other site 557760004041 D-loop; other site 557760004042 H-loop/switch region; other site 557760004043 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557760004044 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760004045 Walker A/P-loop; other site 557760004046 ATP binding site [chemical binding]; other site 557760004047 Q-loop/lid; other site 557760004048 ABC transporter signature motif; other site 557760004049 Walker B; other site 557760004050 D-loop; other site 557760004051 H-loop/switch region; other site 557760004052 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557760004053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760004054 NAD(P) binding site [chemical binding]; other site 557760004055 active site 557760004056 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 557760004057 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 557760004058 putative homodimer interface [polypeptide binding]; other site 557760004059 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 557760004060 heterodimer interface [polypeptide binding]; other site 557760004061 homodimer interface [polypeptide binding]; other site 557760004062 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 557760004063 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 557760004064 23S rRNA interface [nucleotide binding]; other site 557760004065 L7/L12 interface [polypeptide binding]; other site 557760004066 putative thiostrepton binding site; other site 557760004067 L25 interface [polypeptide binding]; other site 557760004068 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 557760004069 mRNA/rRNA interface [nucleotide binding]; other site 557760004070 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 557760004071 23S rRNA interface [nucleotide binding]; other site 557760004072 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 557760004073 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 557760004074 core dimer interface [polypeptide binding]; other site 557760004075 peripheral dimer interface [polypeptide binding]; other site 557760004076 L10 interface [polypeptide binding]; other site 557760004077 L11 interface [polypeptide binding]; other site 557760004078 putative EF-Tu interaction site [polypeptide binding]; other site 557760004079 putative EF-G interaction site [polypeptide binding]; other site 557760004080 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 557760004081 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 557760004082 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 557760004083 RPB11 interaction site [polypeptide binding]; other site 557760004084 RPB12 interaction site [polypeptide binding]; other site 557760004085 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 557760004086 RPB3 interaction site [polypeptide binding]; other site 557760004087 RPB1 interaction site [polypeptide binding]; other site 557760004088 RPB11 interaction site [polypeptide binding]; other site 557760004089 RPB10 interaction site [polypeptide binding]; other site 557760004090 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 557760004091 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 557760004092 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 557760004093 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 557760004094 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 557760004095 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557760004096 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 557760004097 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 557760004098 DNA binding site [nucleotide binding] 557760004099 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 557760004100 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760004101 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 557760004102 S17 interaction site [polypeptide binding]; other site 557760004103 S8 interaction site; other site 557760004104 16S rRNA interaction site [nucleotide binding]; other site 557760004105 streptomycin interaction site [chemical binding]; other site 557760004106 23S rRNA interaction site [nucleotide binding]; other site 557760004107 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 557760004108 30S ribosomal protein S7; Validated; Region: PRK05302 557760004109 elongation factor G; Reviewed; Region: PRK00007 557760004110 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557760004111 G1 box; other site 557760004112 putative GEF interaction site [polypeptide binding]; other site 557760004113 GTP/Mg2+ binding site [chemical binding]; other site 557760004114 Switch I region; other site 557760004115 G2 box; other site 557760004116 G3 box; other site 557760004117 Switch II region; other site 557760004118 G4 box; other site 557760004119 G5 box; other site 557760004120 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 557760004121 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 557760004122 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 557760004123 elongation factor Tu; Reviewed; Region: PRK00049 557760004124 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557760004125 G1 box; other site 557760004126 GEF interaction site [polypeptide binding]; other site 557760004127 GTP/Mg2+ binding site [chemical binding]; other site 557760004128 Switch I region; other site 557760004129 G2 box; other site 557760004130 G3 box; other site 557760004131 Switch II region; other site 557760004132 G4 box; other site 557760004133 G5 box; other site 557760004134 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 557760004135 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 557760004136 Antibiotic Binding Site [chemical binding]; other site 557760004137 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 557760004138 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 557760004139 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 557760004140 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 557760004141 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 557760004142 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 557760004143 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 557760004144 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 557760004145 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 557760004146 putative translocon binding site; other site 557760004147 protein-rRNA interface [nucleotide binding]; other site 557760004148 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 557760004149 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 557760004150 G-X-X-G motif; other site 557760004151 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 557760004152 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 557760004153 5S rRNA interface [nucleotide binding]; other site 557760004154 23S rRNA interface [nucleotide binding]; other site 557760004155 putative antibiotic binding site [chemical binding]; other site 557760004156 L25 interface [polypeptide binding]; other site 557760004157 L27 interface [polypeptide binding]; other site 557760004158 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 557760004159 23S rRNA interface [nucleotide binding]; other site 557760004160 putative translocon interaction site; other site 557760004161 signal recognition particle (SRP54) interaction site; other site 557760004162 L23 interface [polypeptide binding]; other site 557760004163 trigger factor interaction site; other site 557760004164 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 557760004165 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 557760004166 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 557760004167 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 557760004168 RNA binding site [nucleotide binding]; other site 557760004169 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 557760004170 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 557760004171 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 557760004172 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 557760004173 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 557760004174 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 557760004175 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557760004176 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557760004177 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 557760004178 5S rRNA interface [nucleotide binding]; other site 557760004179 23S rRNA interface [nucleotide binding]; other site 557760004180 L5 interface [polypeptide binding]; other site 557760004181 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 557760004182 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 557760004183 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 557760004184 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 557760004185 23S rRNA binding site [nucleotide binding]; other site 557760004186 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 557760004187 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 557760004188 SecY translocase; Region: SecY; pfam00344 557760004189 adenylate kinase; Reviewed; Region: adk; PRK00279 557760004190 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 557760004191 AMP-binding site [chemical binding]; other site 557760004192 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557760004193 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 557760004194 30S ribosomal protein S13; Region: bact_S13; TIGR03631 557760004195 30S ribosomal protein S11; Validated; Region: PRK05309 557760004196 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 557760004197 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 557760004198 alphaNTD - beta interaction site [polypeptide binding]; other site 557760004199 alphaNTD homodimer interface [polypeptide binding]; other site 557760004200 alphaNTD - beta' interaction site [polypeptide binding]; other site 557760004201 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 557760004202 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 557760004203 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557760004204 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 557760004205 dimerization interface [polypeptide binding]; other site 557760004206 DNA binding residues [nucleotide binding] 557760004207 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 557760004208 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557760004209 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 557760004210 protein binding site [polypeptide binding]; other site 557760004211 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 557760004212 protein binding site [polypeptide binding]; other site 557760004213 recombination factor protein RarA; Reviewed; Region: PRK13342 557760004214 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 557760004215 ATP binding site [chemical binding]; other site 557760004216 Walker A motif; other site 557760004217 Walker B motif; other site 557760004218 arginine finger; other site 557760004219 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 557760004220 camphor resistance protein CrcB; Provisional; Region: PRK14209 557760004221 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557760004222 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 557760004223 RNA binding surface [nucleotide binding]; other site 557760004224 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557760004225 active site 557760004226 ATP12 chaperone protein; Region: ATP12; pfam07542 557760004227 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557760004228 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 557760004229 substrate binding pocket [chemical binding]; other site 557760004230 membrane-bound complex binding site; other site 557760004231 hinge residues; other site 557760004232 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 557760004233 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 557760004234 conserved gate region; other site 557760004235 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 557760004236 putative PBP binding loops; other site 557760004237 dimer interface [polypeptide binding]; other site 557760004238 ABC-ATPase subunit interface; other site 557760004239 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557760004240 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 557760004241 dimer interface [polypeptide binding]; other site 557760004242 conserved gate region; other site 557760004243 putative PBP binding loops; other site 557760004244 ABC-ATPase subunit interface; other site 557760004245 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557760004246 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557760004247 Walker A/P-loop; other site 557760004248 ATP binding site [chemical binding]; other site 557760004249 Q-loop/lid; other site 557760004250 ABC transporter signature motif; other site 557760004251 Walker B; other site 557760004252 D-loop; other site 557760004253 H-loop/switch region; other site 557760004254 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557760004255 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 557760004256 catalytic loop [active] 557760004257 iron binding site [ion binding]; other site 557760004258 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557760004259 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557760004260 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 557760004261 active site 557760004262 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 557760004263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557760004264 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760004265 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 557760004266 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 557760004267 oligomerization interface [polypeptide binding]; other site 557760004268 active site 557760004269 metal binding site [ion binding]; metal-binding site 557760004270 pantoate--beta-alanine ligase; Region: panC; TIGR00018 557760004271 Pantoate-beta-alanine ligase; Region: PanC; cd00560 557760004272 active site 557760004273 ATP-binding site [chemical binding]; other site 557760004274 pantoate-binding site; other site 557760004275 HXXH motif; other site 557760004276 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 557760004277 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 557760004278 metal binding site [ion binding]; metal-binding site 557760004279 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 557760004280 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 557760004281 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 557760004282 putative tRNA-binding site [nucleotide binding]; other site 557760004283 B3/4 domain; Region: B3_4; pfam03483 557760004284 tRNA synthetase B5 domain; Region: B5; smart00874 557760004285 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 557760004286 dimer interface [polypeptide binding]; other site 557760004287 motif 1; other site 557760004288 motif 3; other site 557760004289 motif 2; other site 557760004290 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 557760004291 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 557760004292 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 557760004293 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 557760004294 dimer interface [polypeptide binding]; other site 557760004295 motif 1; other site 557760004296 active site 557760004297 motif 2; other site 557760004298 motif 3; other site 557760004299 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 557760004300 23S rRNA binding site [nucleotide binding]; other site 557760004301 L21 binding site [polypeptide binding]; other site 557760004302 L13 binding site [polypeptide binding]; other site 557760004303 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 557760004304 pyruvate kinase; Provisional; Region: PRK06247 557760004305 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 557760004306 active site 557760004307 domain interfaces; other site 557760004308 N-formylglutamate amidohydrolase; Region: FGase; cl01522 557760004309 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557760004310 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 557760004311 homodimer interface [polypeptide binding]; other site 557760004312 substrate-cofactor binding pocket; other site 557760004313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760004314 catalytic residue [active] 557760004315 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 557760004316 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 557760004317 active site 557760004318 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 557760004319 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 557760004320 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 557760004321 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 557760004322 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 557760004323 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 557760004324 Hint domain; Region: Hint_2; pfam13403 557760004325 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 557760004326 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 557760004327 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557760004328 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557760004329 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557760004330 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 557760004331 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557760004332 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 557760004333 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 557760004334 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760004335 TPR repeat; Region: TPR_11; pfam13414 557760004336 binding surface 557760004337 TPR motif; other site 557760004338 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760004339 binding surface 557760004340 TPR motif; other site 557760004341 TPR repeat; Region: TPR_11; pfam13414 557760004342 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 557760004343 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 557760004344 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 557760004345 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557760004346 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557760004347 DNA binding site [nucleotide binding] 557760004348 domain linker motif; other site 557760004349 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 557760004350 putative dimerization interface [polypeptide binding]; other site 557760004351 putative ligand binding site [chemical binding]; other site 557760004352 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 557760004353 active site 557760004354 phosphorylation site [posttranslational modification] 557760004355 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 557760004356 dimerization domain swap beta strand [polypeptide binding]; other site 557760004357 regulatory protein interface [polypeptide binding]; other site 557760004358 active site 557760004359 regulatory phosphorylation site [posttranslational modification]; other site 557760004360 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557760004361 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557760004362 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557760004363 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557760004364 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 557760004365 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 557760004366 putative substrate binding site [chemical binding]; other site 557760004367 putative ATP binding site [chemical binding]; other site 557760004368 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 557760004369 active site 557760004370 P-loop; other site 557760004371 phosphorylation site [posttranslational modification] 557760004372 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 557760004373 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 557760004374 active site 557760004375 P-loop; other site 557760004376 phosphorylation site [posttranslational modification] 557760004377 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 557760004378 hypothetical protein; Provisional; Region: PRK02237 557760004379 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 557760004380 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 557760004381 DNA binding residues [nucleotide binding] 557760004382 dimer interface [polypeptide binding]; other site 557760004383 putative metal binding site [ion binding]; other site 557760004384 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 557760004385 metal-binding site [ion binding] 557760004386 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 557760004387 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557760004388 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557760004389 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557760004390 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 557760004391 dimer interface [polypeptide binding]; other site 557760004392 ssDNA binding site [nucleotide binding]; other site 557760004393 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557760004394 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 557760004395 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760004396 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760004397 catalytic residue [active] 557760004398 seryl-tRNA synthetase; Provisional; Region: PRK05431 557760004399 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 557760004400 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 557760004401 dimer interface [polypeptide binding]; other site 557760004402 active site 557760004403 motif 1; other site 557760004404 motif 2; other site 557760004405 motif 3; other site 557760004406 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 557760004407 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 557760004408 E-class dimer interface [polypeptide binding]; other site 557760004409 P-class dimer interface [polypeptide binding]; other site 557760004410 active site 557760004411 Cu2+ binding site [ion binding]; other site 557760004412 Zn2+ binding site [ion binding]; other site 557760004413 Preprotein translocase subunit; Region: YajC; pfam02699 557760004414 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 557760004415 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 557760004416 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 557760004417 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 557760004418 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557760004419 Protein export membrane protein; Region: SecD_SecF; pfam02355 557760004420 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 557760004421 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 557760004422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760004423 Walker A/P-loop; other site 557760004424 ATP binding site [chemical binding]; other site 557760004425 Q-loop/lid; other site 557760004426 ABC transporter signature motif; other site 557760004427 Walker B; other site 557760004428 D-loop; other site 557760004429 H-loop/switch region; other site 557760004430 CcmB protein; Region: CcmB; pfam03379 557760004431 heme exporter protein CcmC; Region: ccmC; TIGR01191 557760004432 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 557760004433 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 557760004434 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 557760004435 catalytic residues [active] 557760004436 central insert; other site 557760004437 aconitate hydratase; Validated; Region: PRK09277 557760004438 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 557760004439 substrate binding site [chemical binding]; other site 557760004440 ligand binding site [chemical binding]; other site 557760004441 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 557760004442 substrate binding site [chemical binding]; other site 557760004443 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 557760004444 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 557760004445 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 557760004446 active site 557760004447 HIGH motif; other site 557760004448 dimer interface [polypeptide binding]; other site 557760004449 KMSKS motif; other site 557760004450 Rhomboid family; Region: Rhomboid; cl11446 557760004451 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 557760004452 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 557760004453 PII uridylyl-transferase; Provisional; Region: PRK05092 557760004454 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557760004455 metal binding triad; other site 557760004456 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557760004457 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557760004458 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557760004459 Zn2+ binding site [ion binding]; other site 557760004460 Mg2+ binding site [ion binding]; other site 557760004461 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 557760004462 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 557760004463 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760004464 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 557760004465 putative ligand binding site [chemical binding]; other site 557760004466 Predicted methyltransferases [General function prediction only]; Region: COG0313 557760004467 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 557760004468 putative SAM binding site [chemical binding]; other site 557760004469 putative homodimer interface [polypeptide binding]; other site 557760004470 hypothetical protein; Provisional; Region: PRK14676 557760004471 glutathione synthetase; Provisional; Region: PRK05246 557760004472 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 557760004473 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 557760004474 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 557760004475 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557760004476 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 557760004477 Walker A motif; other site 557760004478 ATP binding site [chemical binding]; other site 557760004479 Walker B motif; other site 557760004480 arginine finger; other site 557760004481 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 557760004482 FeoC like transcriptional regulator; Region: FeoC; pfam09012 557760004483 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 557760004484 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 557760004485 G1 box; other site 557760004486 GTP/Mg2+ binding site [chemical binding]; other site 557760004487 Switch I region; other site 557760004488 G2 box; other site 557760004489 G3 box; other site 557760004490 Switch II region; other site 557760004491 G4 box; other site 557760004492 G5 box; other site 557760004493 Nucleoside recognition; Region: Gate; pfam07670 557760004494 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 557760004495 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 557760004496 FeoA domain; Region: FeoA; pfam04023 557760004497 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 557760004498 dimerization interface [polypeptide binding]; other site 557760004499 metal binding site [ion binding]; metal-binding site 557760004500 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 557760004501 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 557760004502 putative molybdopterin cofactor binding site [chemical binding]; other site 557760004503 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 557760004504 putative molybdopterin cofactor binding site; other site 557760004505 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 557760004506 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 557760004507 homodimer interface [polypeptide binding]; other site 557760004508 NAD binding pocket [chemical binding]; other site 557760004509 ATP binding pocket [chemical binding]; other site 557760004510 Mg binding site [ion binding]; other site 557760004511 active-site loop [active] 557760004512 Competence-damaged protein; Region: CinA; pfam02464 557760004513 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 557760004514 MPT binding site; other site 557760004515 trimer interface [polypeptide binding]; other site 557760004516 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 557760004517 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 557760004518 NAD binding site [chemical binding]; other site 557760004519 catalytic Zn binding site [ion binding]; other site 557760004520 substrate binding site [chemical binding]; other site 557760004521 structural Zn binding site [ion binding]; other site 557760004522 protease TldD; Provisional; Region: tldD; PRK10735 557760004523 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 557760004524 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 557760004525 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557760004526 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 557760004527 UbiA prenyltransferase family; Region: UbiA; pfam01040 557760004528 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 557760004529 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 557760004530 Subunit III/VIIa interface [polypeptide binding]; other site 557760004531 Phospholipid binding site [chemical binding]; other site 557760004532 Subunit I/III interface [polypeptide binding]; other site 557760004533 Subunit III/VIb interface [polypeptide binding]; other site 557760004534 Subunit III/VIa interface; other site 557760004535 Subunit III/Vb interface [polypeptide binding]; other site 557760004536 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 557760004537 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 557760004538 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 557760004539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760004540 catalytic residue [active] 557760004541 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557760004542 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557760004543 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557760004544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557760004545 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557760004546 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 557760004547 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 557760004548 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557760004549 FAD binding domain; Region: FAD_binding_4; pfam01565 557760004550 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760004551 active site 557760004552 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 557760004553 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 557760004554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760004555 Coenzyme A binding pocket [chemical binding]; other site 557760004556 Intracellular septation protein A; Region: IspA; pfam04279 557760004557 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 557760004558 EamA-like transporter family; Region: EamA; pfam00892 557760004559 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 557760004560 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 557760004561 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 557760004562 P loop; other site 557760004563 GTP binding site [chemical binding]; other site 557760004564 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 557760004565 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 557760004566 generic binding surface II; other site 557760004567 generic binding surface I; other site 557760004568 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 557760004569 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 557760004570 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 557760004571 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 557760004572 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 557760004573 pyruvate kinase; Validated; Region: PRK08187 557760004574 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 557760004575 domain interfaces; other site 557760004576 active site 557760004577 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 557760004578 aspartate kinase; Reviewed; Region: PRK06635 557760004579 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 557760004580 putative nucleotide binding site [chemical binding]; other site 557760004581 putative catalytic residues [active] 557760004582 putative Mg ion binding site [ion binding]; other site 557760004583 putative aspartate binding site [chemical binding]; other site 557760004584 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 557760004585 putative allosteric regulatory site; other site 557760004586 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 557760004587 putative allosteric regulatory residue; other site 557760004588 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 557760004589 GAF domain; Region: GAF; pfam01590 557760004590 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557760004591 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557760004592 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557760004593 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 557760004594 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 557760004595 homodimer interface [polypeptide binding]; other site 557760004596 substrate-cofactor binding pocket; other site 557760004597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760004598 catalytic residue [active] 557760004599 putative GTP cyclohydrolase; Provisional; Region: PRK13674 557760004600 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 557760004601 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557760004602 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 557760004603 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557760004604 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760004605 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 557760004606 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557760004607 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 557760004608 dimer interface [polypeptide binding]; other site 557760004609 motif 1; other site 557760004610 active site 557760004611 motif 2; other site 557760004612 motif 3; other site 557760004613 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 557760004614 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 557760004615 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557760004616 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 557760004617 pyruvate phosphate dikinase; Provisional; Region: PRK09279 557760004618 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557760004619 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557760004620 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 557760004621 Dihydroneopterin aldolase; Region: FolB; smart00905 557760004622 active site 557760004623 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 557760004624 dihydropteroate synthase; Region: DHPS; TIGR01496 557760004625 substrate binding pocket [chemical binding]; other site 557760004626 dimer interface [polypeptide binding]; other site 557760004627 inhibitor binding site; inhibition site 557760004628 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 557760004629 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 557760004630 active site 557760004631 substrate binding site [chemical binding]; other site 557760004632 metal binding site [ion binding]; metal-binding site 557760004633 ketol-acid reductoisomerase; Provisional; Region: PRK05479 557760004634 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 557760004635 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 557760004636 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760004637 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 557760004638 AsnC family; Region: AsnC_trans_reg; pfam01037 557760004639 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 557760004640 putative DNA binding site [nucleotide binding]; other site 557760004641 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760004642 AsnC family; Region: AsnC_trans_reg; pfam01037 557760004643 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 557760004644 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760004645 catalytic residue [active] 557760004646 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 557760004647 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557760004648 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 557760004649 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557760004650 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 557760004651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760004652 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760004653 DNA-binding site [nucleotide binding]; DNA binding site 557760004654 FCD domain; Region: FCD; pfam07729 557760004655 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557760004656 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557760004657 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 557760004658 active site 557760004659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557760004660 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760004661 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557760004662 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 557760004663 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557760004664 catalytic site [active] 557760004665 subunit interface [polypeptide binding]; other site 557760004666 Yqey-like protein; Region: YqeY; pfam09424 557760004667 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 557760004668 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 557760004669 Subunit I/III interface [polypeptide binding]; other site 557760004670 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557760004671 D-pathway; other site 557760004672 Subunit I/VIIc interface [polypeptide binding]; other site 557760004673 Subunit I/IV interface [polypeptide binding]; other site 557760004674 Subunit I/II interface [polypeptide binding]; other site 557760004675 Low-spin heme (heme a) binding site [chemical binding]; other site 557760004676 Subunit I/VIIa interface [polypeptide binding]; other site 557760004677 Subunit I/VIa interface [polypeptide binding]; other site 557760004678 Dimer interface; other site 557760004679 Putative water exit pathway; other site 557760004680 Binuclear center (heme a3/CuB) [ion binding]; other site 557760004681 K-pathway; other site 557760004682 Subunit I/Vb interface [polypeptide binding]; other site 557760004683 Putative proton exit pathway; other site 557760004684 Subunit I/VIb interface; other site 557760004685 Subunit I/VIc interface [polypeptide binding]; other site 557760004686 Electron transfer pathway; other site 557760004687 Subunit I/VIIIb interface [polypeptide binding]; other site 557760004688 Subunit I/VIIb interface [polypeptide binding]; other site 557760004689 lipoate-protein ligase B; Provisional; Region: PRK14341 557760004690 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760004691 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760004692 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 557760004693 Walker A/P-loop; other site 557760004694 ATP binding site [chemical binding]; other site 557760004695 Q-loop/lid; other site 557760004696 ABC transporter signature motif; other site 557760004697 Walker B; other site 557760004698 D-loop; other site 557760004699 H-loop/switch region; other site 557760004700 TOBE domain; Region: TOBE_2; pfam08402 557760004701 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557760004702 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760004703 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557760004704 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 557760004705 dimer interface [polypeptide binding]; other site 557760004706 conserved gate region; other site 557760004707 putative PBP binding loops; other site 557760004708 ABC-ATPase subunit interface; other site 557760004709 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760004710 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 557760004711 putative PBP binding loops; other site 557760004712 dimer interface [polypeptide binding]; other site 557760004713 ABC-ATPase subunit interface; other site 557760004714 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 557760004715 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 557760004716 Coenzyme A binding pocket [chemical binding]; other site 557760004717 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557760004718 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 557760004719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760004720 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 557760004721 dimerization interface [polypeptide binding]; other site 557760004722 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557760004723 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 557760004724 NAD(P) binding site [chemical binding]; other site 557760004725 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557760004726 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 557760004727 sequence-specific DNA binding site [nucleotide binding]; other site 557760004728 salt bridge; other site 557760004729 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557760004730 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 557760004731 active site 557760004732 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 557760004733 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557760004734 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557760004735 guanine deaminase; Provisional; Region: PRK09228 557760004736 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 557760004737 active site 557760004738 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 557760004739 MgtE intracellular N domain; Region: MgtE_N; smart00924 557760004740 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 557760004741 Divalent cation transporter; Region: MgtE; cl00786 557760004742 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 557760004743 RNA helicase; Region: RNA_helicase; pfam00910 557760004744 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 557760004745 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760004746 TPR motif; other site 557760004747 binding surface 557760004748 TPR repeat; Region: TPR_11; pfam13414 557760004749 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 557760004750 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557760004751 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 557760004752 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557760004753 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 557760004754 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 557760004755 ATP binding site [chemical binding]; other site 557760004756 Walker A motif; other site 557760004757 hexamer interface [polypeptide binding]; other site 557760004758 Walker B motif; other site 557760004759 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557760004760 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 557760004761 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 557760004762 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760004763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760004764 ligand binding site [chemical binding]; other site 557760004765 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 557760004766 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 557760004767 BON domain; Region: BON; pfam04972 557760004768 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557760004769 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 557760004770 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 557760004771 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 557760004772 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760004773 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760004774 catalytic residue [active] 557760004775 Predicted acetyltransferase [General function prediction only]; Region: COG2388 557760004776 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 557760004777 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 557760004778 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557760004779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760004780 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 557760004781 dimerization interface [polypeptide binding]; other site 557760004782 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557760004783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760004784 Coenzyme A binding pocket [chemical binding]; other site 557760004785 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 557760004786 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 557760004787 putative catalytic residue [active] 557760004788 Cupin domain; Region: Cupin_2; cl17218 557760004789 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 557760004790 AAA domain; Region: AAA_28; pfam13521 557760004791 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 557760004792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 557760004793 MOSC domain; Region: MOSC; pfam03473 557760004794 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 557760004795 pyridoxal binding site [chemical binding]; other site 557760004796 dimer interface [polypeptide binding]; other site 557760004797 ATP binding site [chemical binding]; other site 557760004798 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557760004799 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 557760004800 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760004801 DNA-binding site [nucleotide binding]; DNA binding site 557760004802 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 557760004803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760004804 homodimer interface [polypeptide binding]; other site 557760004805 catalytic residue [active] 557760004806 biotin synthase; Region: bioB; TIGR00433 557760004807 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 557760004808 FeS/SAM binding site; other site 557760004809 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 557760004810 BioY family; Region: BioY; pfam02632 557760004811 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760004812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760004813 DNA-binding site [nucleotide binding]; DNA binding site 557760004814 FCD domain; Region: FCD; pfam07729 557760004815 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 557760004816 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 557760004817 FMN binding site [chemical binding]; other site 557760004818 active site 557760004819 catalytic residues [active] 557760004820 substrate binding site [chemical binding]; other site 557760004821 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557760004822 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557760004823 replicative DNA helicase; Provisional; Region: PRK09165 557760004824 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 557760004825 Walker A motif; other site 557760004826 ATP binding site [chemical binding]; other site 557760004827 Walker B motif; other site 557760004828 DNA binding loops [nucleotide binding] 557760004829 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760004830 active site 557760004831 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 557760004832 active site 557760004833 substrate binding pocket [chemical binding]; other site 557760004834 dimer interface [polypeptide binding]; other site 557760004835 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 557760004836 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 557760004837 Walker A motif; other site 557760004838 ATP binding site [chemical binding]; other site 557760004839 Walker B motif; other site 557760004840 arginine finger; other site 557760004841 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 557760004842 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 557760004843 metal ion-dependent adhesion site (MIDAS); other site 557760004844 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760004845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760004846 ligand binding site [chemical binding]; other site 557760004847 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 557760004848 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 557760004849 XdhC Rossmann domain; Region: XdhC_C; pfam13478 557760004850 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 557760004851 putative MPT binding site; other site 557760004852 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 557760004853 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 557760004854 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 557760004855 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557760004856 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 557760004857 FAD binding pocket [chemical binding]; other site 557760004858 FAD binding motif [chemical binding]; other site 557760004859 phosphate binding motif [ion binding]; other site 557760004860 beta-alpha-beta structure motif; other site 557760004861 NAD binding pocket [chemical binding]; other site 557760004862 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 557760004863 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 557760004864 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 557760004865 Active Sites [active] 557760004866 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 557760004867 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557760004868 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557760004869 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 557760004870 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557760004871 active site 557760004872 SAM binding site [chemical binding]; other site 557760004873 homodimer interface [polypeptide binding]; other site 557760004874 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760004875 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 557760004876 putative DNA binding site [nucleotide binding]; other site 557760004877 putative Zn2+ binding site [ion binding]; other site 557760004878 AsnC family; Region: AsnC_trans_reg; pfam01037 557760004879 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 557760004880 Cytochrome P450; Region: p450; cl12078 557760004881 triosephosphate isomerase; Provisional; Region: PRK14565 557760004882 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 557760004883 substrate binding site [chemical binding]; other site 557760004884 dimer interface [polypeptide binding]; other site 557760004885 catalytic triad [active] 557760004886 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 557760004887 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 557760004888 potential frameshift: common BLAST hit: gi|119382825|ref|YP_913881.1| transposase IS66 557760004889 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557760004890 potential frameshift: common BLAST hit: gi|119382825|ref|YP_913881.1| transposase IS66 557760004891 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760004892 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557760004893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760004894 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557760004895 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760004896 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557760004897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760004898 Transposase; Region: HTH_Tnp_1; cl17663 557760004899 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 557760004900 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 557760004901 dimerization interface [polypeptide binding]; other site 557760004902 putative ATP binding site [chemical binding]; other site 557760004903 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 557760004904 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 557760004905 active site 557760004906 substrate binding site [chemical binding]; other site 557760004907 cosubstrate binding site; other site 557760004908 catalytic site [active] 557760004909 ribonuclease D; Region: rnd; TIGR01388 557760004910 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 557760004911 catalytic site [active] 557760004912 putative active site [active] 557760004913 putative substrate binding site [chemical binding]; other site 557760004914 HRDC domain; Region: HRDC; pfam00570 557760004915 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 557760004916 Domain of unknown function (DUF427); Region: DUF427; pfam04248 557760004917 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557760004918 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557760004919 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 557760004920 active site 557760004921 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 557760004922 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 557760004923 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 557760004924 metal ion-dependent adhesion site (MIDAS); other site 557760004925 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 557760004926 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 557760004927 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 557760004928 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 557760004929 HSP70 interaction site [polypeptide binding]; other site 557760004930 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 557760004931 malate synthase G; Provisional; Region: PRK02999 557760004932 active site 557760004933 DNA photolyase; Region: DNA_photolyase; pfam00875 557760004934 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 557760004935 aminopeptidase N; Provisional; Region: pepN; PRK14015 557760004936 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 557760004937 Zn binding site [ion binding]; other site 557760004938 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 557760004939 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557760004940 putative acyl-acceptor binding pocket; other site 557760004941 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 557760004942 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 557760004943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760004944 homodimer interface [polypeptide binding]; other site 557760004945 catalytic residue [active] 557760004946 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 557760004947 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 557760004948 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 557760004949 GatB domain; Region: GatB_Yqey; smart00845 557760004950 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760004951 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760004952 catalytic residue [active] 557760004953 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 557760004954 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 557760004955 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557760004956 HIGH motif; other site 557760004957 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557760004958 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557760004959 active site 557760004960 KMSKS motif; other site 557760004961 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 557760004962 tRNA binding surface [nucleotide binding]; other site 557760004963 anticodon binding site; other site 557760004964 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 557760004965 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 557760004966 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 557760004967 AsnC family; Region: AsnC_trans_reg; pfam01037 557760004968 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 557760004969 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 557760004970 dimer interface [polypeptide binding]; other site 557760004971 active site 557760004972 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557760004973 catalytic residues [active] 557760004974 substrate binding site [chemical binding]; other site 557760004975 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 557760004976 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 557760004977 CoenzymeA binding site [chemical binding]; other site 557760004978 subunit interaction site [polypeptide binding]; other site 557760004979 PHB binding site; other site 557760004980 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 557760004981 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 557760004982 dimer interface [polypeptide binding]; other site 557760004983 active site 557760004984 citrylCoA binding site [chemical binding]; other site 557760004985 NADH binding [chemical binding]; other site 557760004986 cationic pore residues; other site 557760004987 oxalacetate/citrate binding site [chemical binding]; other site 557760004988 coenzyme A binding site [chemical binding]; other site 557760004989 catalytic triad [active] 557760004990 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 557760004991 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557760004992 HIGH motif; other site 557760004993 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557760004994 active site 557760004995 KMSKS motif; other site 557760004996 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 557760004997 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 557760004998 Competence protein; Region: Competence; pfam03772 557760004999 LexA repressor; Validated; Region: PRK00215 557760005000 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 557760005001 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 557760005002 Catalytic site [active] 557760005003 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 557760005004 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 557760005005 dimer interface [polypeptide binding]; other site 557760005006 putative functional site; other site 557760005007 putative MPT binding site; other site 557760005008 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 557760005009 trimer interface [polypeptide binding]; other site 557760005010 dimer interface [polypeptide binding]; other site 557760005011 putative active site [active] 557760005012 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 557760005013 active site 557760005014 ribulose/triose binding site [chemical binding]; other site 557760005015 phosphate binding site [ion binding]; other site 557760005016 substrate (anthranilate) binding pocket [chemical binding]; other site 557760005017 product (indole) binding pocket [chemical binding]; other site 557760005018 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557760005019 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 557760005020 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557760005021 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 557760005022 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557760005023 glutamine binding [chemical binding]; other site 557760005024 catalytic triad [active] 557760005025 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 557760005026 NodB motif; other site 557760005027 putative active site [active] 557760005028 putative catalytic site [active] 557760005029 Zn binding site [ion binding]; other site 557760005030 anthranilate synthase component I; Provisional; Region: PRK13573 557760005031 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557760005032 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 557760005033 SurA N-terminal domain; Region: SurA_N_3; cl07813 557760005034 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 557760005035 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 557760005036 AsmA family; Region: AsmA; pfam05170 557760005037 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 557760005038 GcrA cell cycle regulator; Region: GcrA; cl11564 557760005039 GcrA cell cycle regulator; Region: GcrA; cl11564 557760005040 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 557760005041 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 557760005042 inhibitor-cofactor binding pocket; inhibition site 557760005043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005044 catalytic residue [active] 557760005045 ornithine carbamoyltransferase; Provisional; Region: PRK00779 557760005046 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557760005047 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557760005048 transcription elongation factor regulatory protein; Validated; Region: PRK06342 557760005049 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557760005050 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 557760005051 nudix motif; other site 557760005052 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 557760005053 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 557760005054 ATP binding site [chemical binding]; other site 557760005055 putative Mg++ binding site [ion binding]; other site 557760005056 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 557760005057 nucleotide binding region [chemical binding]; other site 557760005058 ATP-binding site [chemical binding]; other site 557760005059 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 557760005060 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 557760005061 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 557760005062 membrane ATPase/protein kinase; Provisional; Region: PRK09435 557760005063 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 557760005064 Walker A; other site 557760005065 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 557760005066 Protein of unknown function (DUF461); Region: DUF461; pfam04314 557760005067 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 557760005068 Dihaem cytochrome c; Region: DHC; pfam09626 557760005069 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 557760005070 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 557760005071 Dihaem cytochrome c; Region: DHC; pfam09626 557760005072 Predicted membrane protein [Function unknown]; Region: COG4325 557760005073 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760005074 DNA-binding site [nucleotide binding]; DNA binding site 557760005075 RNA-binding motif; other site 557760005076 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760005077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760005078 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 557760005079 putative effector binding pocket; other site 557760005080 putative dimerization interface [polypeptide binding]; other site 557760005081 short chain dehydrogenase; Provisional; Region: PRK06523 557760005082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760005083 NAD(P) binding site [chemical binding]; other site 557760005084 active site 557760005085 potential frameshift: common BLAST hit: gi|119382825|ref|YP_913881.1| transposase IS66 557760005086 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760005087 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557760005088 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557760005089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760005090 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557760005091 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760005092 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557760005093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760005094 Transposase; Region: HTH_Tnp_1; pfam01527 557760005095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760005096 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 557760005097 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760005098 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 557760005099 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 557760005100 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 557760005101 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 557760005102 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557760005103 Phage capsid family; Region: Phage_capsid; pfam05065 557760005104 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557760005105 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557760005106 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 557760005107 tandem repeat interface [polypeptide binding]; other site 557760005108 oligomer interface [polypeptide binding]; other site 557760005109 active site residues [active] 557760005110 Phage-related protein [Function unknown]; Region: COG4695; cl01923 557760005111 Phage portal protein; Region: Phage_portal; pfam04860 557760005112 hypothetical protein; Provisional; Region: PRK13687 557760005113 Phage Terminase; Region: Terminase_1; pfam03354 557760005114 Phage terminase, small subunit; Region: Terminase_4; pfam05119 557760005115 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 557760005116 active site 557760005117 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 557760005118 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 557760005119 ParB-like nuclease domain; Region: ParB; smart00470 557760005120 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557760005121 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 557760005122 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 557760005123 active site 557760005124 catalytic residues [active] 557760005125 DNA binding site [nucleotide binding] 557760005126 Int/Topo IB signature motif; other site 557760005127 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760005128 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 557760005129 excinuclease ABC subunit B; Provisional; Region: PRK05298 557760005130 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 557760005131 ATP binding site [chemical binding]; other site 557760005132 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 557760005133 nucleotide binding region [chemical binding]; other site 557760005134 ATP-binding site [chemical binding]; other site 557760005135 Ultra-violet resistance protein B; Region: UvrB; pfam12344 557760005136 UvrB/uvrC motif; Region: UVR; pfam02151 557760005137 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 557760005138 Entericidin EcnA/B family; Region: Entericidin; cl02322 557760005139 GTP-binding protein LepA; Provisional; Region: PRK05433 557760005140 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 557760005141 G1 box; other site 557760005142 putative GEF interaction site [polypeptide binding]; other site 557760005143 GTP/Mg2+ binding site [chemical binding]; other site 557760005144 Switch I region; other site 557760005145 G2 box; other site 557760005146 G3 box; other site 557760005147 Switch II region; other site 557760005148 G4 box; other site 557760005149 G5 box; other site 557760005150 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 557760005151 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 557760005152 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 557760005153 pyruvate carboxylase; Reviewed; Region: PRK12999 557760005154 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557760005155 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557760005156 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557760005157 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 557760005158 active site 557760005159 catalytic residues [active] 557760005160 metal binding site [ion binding]; metal-binding site 557760005161 homodimer binding site [polypeptide binding]; other site 557760005162 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 557760005163 carboxyltransferase (CT) interaction site; other site 557760005164 biotinylation site [posttranslational modification]; other site 557760005165 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 557760005166 Part of AAA domain; Region: AAA_19; pfam13245 557760005167 Family description; Region: UvrD_C_2; pfam13538 557760005168 benzoate transporter; Region: benE; TIGR00843 557760005169 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 557760005170 Domain of unknown function DUF59; Region: DUF59; pfam01883 557760005171 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 557760005172 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 557760005173 Walker A motif; other site 557760005174 cell division protein MraZ; Reviewed; Region: PRK00326 557760005175 MraZ protein; Region: MraZ; pfam02381 557760005176 MraZ protein; Region: MraZ; pfam02381 557760005177 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 557760005178 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 557760005179 S-adenosylmethionine binding site [chemical binding]; other site 557760005180 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 557760005181 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557760005182 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 557760005183 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557760005184 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 557760005185 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557760005186 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557760005187 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557760005188 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 557760005189 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557760005190 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 557760005191 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 557760005192 Mg++ binding site [ion binding]; other site 557760005193 putative catalytic motif [active] 557760005194 putative substrate binding site [chemical binding]; other site 557760005195 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 557760005196 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 557760005197 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557760005198 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557760005199 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557760005200 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 557760005201 putative hydrophobic ligand binding site [chemical binding]; other site 557760005202 cell division protein FtsW; Region: ftsW; TIGR02614 557760005203 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 557760005204 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 557760005205 homodimer interface [polypeptide binding]; other site 557760005206 active site 557760005207 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 557760005208 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557760005209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557760005210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557760005211 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 557760005212 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 557760005213 FAD binding domain; Region: FAD_binding_4; pfam01565 557760005214 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 557760005215 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 557760005216 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557760005217 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557760005218 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 557760005219 Cell division protein FtsQ; Region: FtsQ; pfam03799 557760005220 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 557760005221 Cell division protein FtsA; Region: FtsA; smart00842 557760005222 Cell division protein FtsA; Region: FtsA; pfam14450 557760005223 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 557760005224 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 557760005225 nucleotide binding site [chemical binding]; other site 557760005226 SulA interaction site; other site 557760005227 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 557760005228 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 557760005229 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 557760005230 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 557760005231 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557760005232 Walker A/P-loop; other site 557760005233 ATP binding site [chemical binding]; other site 557760005234 Q-loop/lid; other site 557760005235 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557760005236 ABC transporter signature motif; other site 557760005237 Walker B; other site 557760005238 D-loop; other site 557760005239 H-loop/switch region; other site 557760005240 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557760005241 FAD binding domain; Region: FAD_binding_4; pfam01565 557760005242 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 557760005243 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 557760005244 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 557760005245 B12 binding site [chemical binding]; other site 557760005246 cobalt ligand [ion binding]; other site 557760005247 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 557760005248 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 557760005249 FeS/SAM binding site; other site 557760005250 methionine synthase I; Validated; Region: PRK07534 557760005251 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 557760005252 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 557760005253 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 557760005254 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 557760005255 ATP binding site [chemical binding]; other site 557760005256 active site 557760005257 substrate binding site [chemical binding]; other site 557760005258 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 557760005259 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 557760005260 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 557760005261 putative active site [active] 557760005262 catalytic triad [active] 557760005263 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 557760005264 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760005265 dimer interface [polypeptide binding]; other site 557760005266 phosphorylation site [posttranslational modification] 557760005267 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760005268 ATP binding site [chemical binding]; other site 557760005269 Mg2+ binding site [ion binding]; other site 557760005270 G-X-G motif; other site 557760005271 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557760005272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760005273 active site 557760005274 phosphorylation site [posttranslational modification] 557760005275 intermolecular recognition site; other site 557760005276 dimerization interface [polypeptide binding]; other site 557760005277 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 557760005278 Walker A motif; other site 557760005279 ATP binding site [chemical binding]; other site 557760005280 Walker B motif; other site 557760005281 arginine finger; other site 557760005282 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760005283 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 557760005284 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 557760005285 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 557760005286 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 557760005287 CPxP motif; other site 557760005288 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 557760005289 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 557760005290 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 557760005291 nucleophilic elbow; other site 557760005292 catalytic triad; other site 557760005293 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 557760005294 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 557760005295 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557760005296 Class II fumarases; Region: Fumarase_classII; cd01362 557760005297 active site 557760005298 tetramer interface [polypeptide binding]; other site 557760005299 Stringent starvation protein B; Region: SspB; pfam04386 557760005300 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 557760005301 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557760005302 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760005303 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557760005304 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 557760005305 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760005306 catalytic residue [active] 557760005307 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 557760005308 DNA photolyase; Region: DNA_photolyase; pfam00875 557760005309 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 557760005310 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 557760005311 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 557760005312 S-adenosylmethionine binding site [chemical binding]; other site 557760005313 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; cl15777 557760005314 putative active site pocket [active] 557760005315 putative catalytic residue [active] 557760005316 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 557760005317 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 557760005318 dimer interface [polypeptide binding]; other site 557760005319 ADP-ribose binding site [chemical binding]; other site 557760005320 active site 557760005321 nudix motif; other site 557760005322 metal binding site [ion binding]; metal-binding site 557760005323 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557760005324 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 557760005325 dimer interface [polypeptide binding]; other site 557760005326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005327 catalytic residue [active] 557760005328 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 557760005329 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 557760005330 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557760005331 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 557760005332 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557760005333 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557760005334 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 557760005335 Ligand binding site; other site 557760005336 Putative Catalytic site; other site 557760005337 DXD motif; other site 557760005338 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 557760005339 ligand binding site; other site 557760005340 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 557760005341 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 557760005342 putative active site [active] 557760005343 putative metal binding site [ion binding]; other site 557760005344 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 557760005345 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 557760005346 NAD binding site [chemical binding]; other site 557760005347 dimerization interface [polypeptide binding]; other site 557760005348 product binding site; other site 557760005349 substrate binding site [chemical binding]; other site 557760005350 zinc binding site [ion binding]; other site 557760005351 catalytic residues [active] 557760005352 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760005353 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 557760005354 dimer interface [polypeptide binding]; other site 557760005355 conserved gate region; other site 557760005356 putative PBP binding loops; other site 557760005357 ABC-ATPase subunit interface; other site 557760005358 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557760005359 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 557760005360 dimer interface [polypeptide binding]; other site 557760005361 conserved gate region; other site 557760005362 putative PBP binding loops; other site 557760005363 ABC-ATPase subunit interface; other site 557760005364 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760005365 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 557760005366 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760005367 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760005368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760005369 Walker A/P-loop; other site 557760005370 ATP binding site [chemical binding]; other site 557760005371 Q-loop/lid; other site 557760005372 ABC transporter signature motif; other site 557760005373 Walker B; other site 557760005374 D-loop; other site 557760005375 H-loop/switch region; other site 557760005376 TOBE domain; Region: TOBE_2; pfam08402 557760005377 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 557760005378 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557760005379 NADP binding site [chemical binding]; other site 557760005380 homodimer interface [polypeptide binding]; other site 557760005381 active site 557760005382 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 557760005383 active site 557760005384 lytic murein transglycosylase; Region: MltB_2; TIGR02283 557760005385 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760005386 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760005387 catalytic residue [active] 557760005388 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760005389 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 557760005390 dimerization interface [polypeptide binding]; other site 557760005391 putative Zn2+ binding site [ion binding]; other site 557760005392 putative DNA binding site [nucleotide binding]; other site 557760005393 AsnC family; Region: AsnC_trans_reg; pfam01037 557760005394 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 557760005395 Proline dehydrogenase; Region: Pro_dh; pfam01619 557760005396 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 557760005397 Glutamate binding site [chemical binding]; other site 557760005398 NAD binding site [chemical binding]; other site 557760005399 catalytic residues [active] 557760005400 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 557760005401 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557760005402 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557760005403 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 557760005404 active site 557760005405 dimerization interface [polypeptide binding]; other site 557760005406 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557760005407 Phosphate transporter family; Region: PHO4; pfam01384 557760005408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760005409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760005410 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 557760005411 putative dimerization interface [polypeptide binding]; other site 557760005412 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 557760005413 FAD binding site [chemical binding]; other site 557760005414 BioY family; Region: BioY; pfam02632 557760005415 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557760005416 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557760005417 Walker A/P-loop; other site 557760005418 ATP binding site [chemical binding]; other site 557760005419 Q-loop/lid; other site 557760005420 ABC transporter signature motif; other site 557760005421 Walker B; other site 557760005422 D-loop; other site 557760005423 H-loop/switch region; other site 557760005424 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 557760005425 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 557760005426 inhibitor-cofactor binding pocket; inhibition site 557760005427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005428 catalytic residue [active] 557760005429 DNA protecting protein DprA; Region: dprA; TIGR00732 557760005430 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 557760005431 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 557760005432 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 557760005433 active site 557760005434 interdomain interaction site; other site 557760005435 putative metal-binding site [ion binding]; other site 557760005436 nucleotide binding site [chemical binding]; other site 557760005437 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 557760005438 domain I; other site 557760005439 DNA binding groove [nucleotide binding] 557760005440 phosphate binding site [ion binding]; other site 557760005441 domain II; other site 557760005442 domain III; other site 557760005443 nucleotide binding site [chemical binding]; other site 557760005444 catalytic site [active] 557760005445 domain IV; other site 557760005446 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557760005447 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 557760005448 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 557760005449 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 557760005450 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 557760005451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760005452 Walker A/P-loop; other site 557760005453 ATP binding site [chemical binding]; other site 557760005454 Q-loop/lid; other site 557760005455 ABC transporter signature motif; other site 557760005456 Walker B; other site 557760005457 D-loop; other site 557760005458 H-loop/switch region; other site 557760005459 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 557760005460 dimer interface [polypeptide binding]; other site 557760005461 conserved gate region; other site 557760005462 putative PBP binding loops; other site 557760005463 ABC-ATPase subunit interface; other site 557760005464 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 557760005465 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557760005466 transcriptional regulator BetI; Validated; Region: PRK00767 557760005467 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760005468 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 557760005469 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 557760005470 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557760005471 NAD(P) binding site [chemical binding]; other site 557760005472 catalytic residues [active] 557760005473 choline dehydrogenase; Validated; Region: PRK02106 557760005474 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760005475 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557760005476 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 557760005477 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 557760005478 Catalytic site; other site 557760005479 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557760005480 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 557760005481 non-specific DNA binding site [nucleotide binding]; other site 557760005482 salt bridge; other site 557760005483 sequence-specific DNA binding site [nucleotide binding]; other site 557760005484 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 557760005485 Domain of unknown function (DUF955); Region: DUF955; pfam06114 557760005486 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 557760005487 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 557760005488 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760005489 putative substrate translocation pore; other site 557760005490 Protein of unknown function, DUF486; Region: DUF486; cl01236 557760005491 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 557760005492 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 557760005493 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557760005494 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 557760005495 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557760005496 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557760005497 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557760005498 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 557760005499 carboxyltransferase (CT) interaction site; other site 557760005500 biotinylation site [posttranslational modification]; other site 557760005501 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 557760005502 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 557760005503 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 557760005504 active site 557760005505 substrate binding site [chemical binding]; other site 557760005506 coenzyme B12 binding site [chemical binding]; other site 557760005507 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 557760005508 B12 binding site [chemical binding]; other site 557760005509 cobalt ligand [ion binding]; other site 557760005510 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 557760005511 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557760005512 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 557760005513 lipoyl attachment site [posttranslational modification]; other site 557760005514 glycine dehydrogenase; Provisional; Region: PRK05367 557760005515 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 557760005516 tetramer interface [polypeptide binding]; other site 557760005517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005518 catalytic residue [active] 557760005519 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 557760005520 tetramer interface [polypeptide binding]; other site 557760005521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005522 catalytic residue [active] 557760005523 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 557760005524 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760005525 substrate binding site [chemical binding]; other site 557760005526 oxyanion hole (OAH) forming residues; other site 557760005527 trimer interface [polypeptide binding]; other site 557760005528 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557760005529 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557760005530 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557760005531 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 557760005532 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 557760005533 dimer interface [polypeptide binding]; other site 557760005534 active site 557760005535 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557760005536 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557760005537 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557760005538 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760005539 active site 557760005540 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557760005541 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 557760005542 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557760005543 DNA binding residues [nucleotide binding] 557760005544 putative dimer interface [polypeptide binding]; other site 557760005545 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 557760005546 DNA binding residues [nucleotide binding] 557760005547 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 557760005548 putative dimer interface [polypeptide binding]; other site 557760005549 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 557760005550 CoenzymeA binding site [chemical binding]; other site 557760005551 subunit interaction site [polypeptide binding]; other site 557760005552 PHB binding site; other site 557760005553 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 557760005554 CoenzymeA binding site [chemical binding]; other site 557760005555 subunit interaction site [polypeptide binding]; other site 557760005556 PHB binding site; other site 557760005557 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 557760005558 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 557760005559 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 557760005560 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557760005561 purine nucleoside phosphorylase; Provisional; Region: PRK08202 557760005562 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760005563 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 557760005564 TM-ABC transporter signature motif; other site 557760005565 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 557760005566 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760005567 TM-ABC transporter signature motif; other site 557760005568 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 557760005569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760005570 Walker A/P-loop; other site 557760005571 ATP binding site [chemical binding]; other site 557760005572 Q-loop/lid; other site 557760005573 ABC transporter signature motif; other site 557760005574 Walker B; other site 557760005575 D-loop; other site 557760005576 H-loop/switch region; other site 557760005577 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760005578 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 557760005579 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 557760005580 ligand binding site [chemical binding]; other site 557760005581 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760005582 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557760005583 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 557760005584 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 557760005585 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 557760005586 Ligand Binding Site [chemical binding]; other site 557760005587 aminotransferase; Provisional; Region: PRK13356 557760005588 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557760005589 homodimer interface [polypeptide binding]; other site 557760005590 substrate-cofactor binding pocket; other site 557760005591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005592 catalytic residue [active] 557760005593 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_12; cd07255 557760005594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760005595 putative metal binding site [ion binding]; other site 557760005596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557760005597 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760005598 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557760005599 putative acyl-acceptor binding pocket; other site 557760005600 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 557760005601 FliG C-terminal domain; Region: FliG_C; pfam01706 557760005602 adenylosuccinate lyase; Provisional; Region: PRK07492 557760005603 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 557760005604 tetramer interface [polypeptide binding]; other site 557760005605 active site 557760005606 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 557760005607 Domain of unknown function (DUF333); Region: DUF333; pfam03891 557760005608 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557760005609 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557760005610 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557760005611 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760005612 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 557760005613 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 557760005614 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 557760005615 active site 557760005616 catalytic site [active] 557760005617 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 557760005618 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 557760005619 active site 557760005620 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 557760005621 sulfate 1 binding site; other site 557760005622 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 557760005623 putative active site [active] 557760005624 heme pocket [chemical binding]; other site 557760005625 CheB methylesterase; Region: CheB_methylest; pfam01339 557760005626 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557760005627 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 557760005628 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 557760005629 PAS domain; Region: PAS_10; pfam13596 557760005630 PAS fold; Region: PAS_4; pfam08448 557760005631 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760005632 putative active site [active] 557760005633 heme pocket [chemical binding]; other site 557760005634 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760005635 HWE histidine kinase; Region: HWE_HK; pfam07536 557760005636 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557760005637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760005638 active site 557760005639 phosphorylation site [posttranslational modification] 557760005640 intermolecular recognition site; other site 557760005641 dimerization interface [polypeptide binding]; other site 557760005642 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 557760005643 Domain of unknown function (DUF4130; Region: DUF4130; pfam13566 557760005644 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 557760005645 Fe-S cluster binding site [ion binding]; other site 557760005646 active site 557760005647 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 557760005648 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 557760005649 FeS/SAM binding site; other site 557760005650 Beta-lactamase; Region: Beta-lactamase; pfam00144 557760005651 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557760005652 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557760005653 MarR family; Region: MarR_2; pfam12802 557760005654 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557760005655 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557760005656 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760005657 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 557760005658 putative substrate translocation pore; other site 557760005659 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557760005660 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 557760005661 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557760005662 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 557760005663 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 557760005664 metal binding site [ion binding]; metal-binding site 557760005665 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 557760005666 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 557760005667 substrate binding site [chemical binding]; other site 557760005668 glutamase interaction surface [polypeptide binding]; other site 557760005669 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 557760005670 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 557760005671 catalytic residues [active] 557760005672 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 557760005673 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 557760005674 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 557760005675 putative active site [active] 557760005676 oxyanion strand; other site 557760005677 catalytic triad [active] 557760005678 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 557760005679 putative active site pocket [active] 557760005680 4-fold oligomerization interface [polypeptide binding]; other site 557760005681 metal binding residues [ion binding]; metal-binding site 557760005682 3-fold/trimer interface [polypeptide binding]; other site 557760005683 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 557760005684 elongation factor G; Reviewed; Region: PRK12740 557760005685 G1 box; other site 557760005686 putative GEF interaction site [polypeptide binding]; other site 557760005687 GTP/Mg2+ binding site [chemical binding]; other site 557760005688 Switch I region; other site 557760005689 G2 box; other site 557760005690 G3 box; other site 557760005691 Switch II region; other site 557760005692 G4 box; other site 557760005693 G5 box; other site 557760005694 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 557760005695 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 557760005696 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 557760005697 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 557760005698 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760005699 putative substrate translocation pore; other site 557760005700 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557760005701 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 557760005702 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557760005703 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 557760005704 hypothetical protein; Provisional; Region: PRK06815 557760005705 tetramer interface [polypeptide binding]; other site 557760005706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005707 catalytic residue [active] 557760005708 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557760005709 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 557760005710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760005711 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 557760005712 Walker A/P-loop; other site 557760005713 ATP binding site [chemical binding]; other site 557760005714 Q-loop/lid; other site 557760005715 ABC transporter signature motif; other site 557760005716 Walker B; other site 557760005717 D-loop; other site 557760005718 H-loop/switch region; other site 557760005719 AMP-binding domain protein; Validated; Region: PRK07529 557760005720 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760005721 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 557760005722 acyl-activating enzyme (AAE) consensus motif; other site 557760005723 putative AMP binding site [chemical binding]; other site 557760005724 putative active site [active] 557760005725 putative CoA binding site [chemical binding]; other site 557760005726 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 557760005727 putative active site [active] 557760005728 dimerization interface [polypeptide binding]; other site 557760005729 putative tRNAtyr binding site [nucleotide binding]; other site 557760005730 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760005731 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 557760005732 putative substrate binding site [chemical binding]; other site 557760005733 putative ATP binding site [chemical binding]; other site 557760005734 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 557760005735 active site 557760005736 ATP binding site [chemical binding]; other site 557760005737 substrate binding site [chemical binding]; other site 557760005738 Predicted membrane protein [Function unknown]; Region: COG1238 557760005739 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 557760005740 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 557760005741 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 557760005742 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 557760005743 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 557760005744 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557760005745 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 557760005746 RNA binding surface [nucleotide binding]; other site 557760005747 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 557760005748 active site 557760005749 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 557760005750 nucleoside/Zn binding site; other site 557760005751 dimer interface [polypeptide binding]; other site 557760005752 catalytic motif [active] 557760005753 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557760005754 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 557760005755 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 557760005756 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 557760005757 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 557760005758 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 557760005759 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 557760005760 amidase catalytic site [active] 557760005761 Zn binding residues [ion binding]; other site 557760005762 substrate binding site [chemical binding]; other site 557760005763 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 557760005764 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760005765 acyl-activating enzyme (AAE) consensus motif; other site 557760005766 active site 557760005767 AMP binding site [chemical binding]; other site 557760005768 CoA binding site [chemical binding]; other site 557760005769 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557760005770 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760005771 Walker A/P-loop; other site 557760005772 ATP binding site [chemical binding]; other site 557760005773 Q-loop/lid; other site 557760005774 ABC transporter signature motif; other site 557760005775 Walker B; other site 557760005776 D-loop; other site 557760005777 H-loop/switch region; other site 557760005778 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 557760005779 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760005780 putative ligand binding site [chemical binding]; other site 557760005781 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 557760005782 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 557760005783 TM-ABC transporter signature motif; other site 557760005784 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760005785 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 557760005786 TM-ABC transporter signature motif; other site 557760005787 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760005788 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760005789 Walker A/P-loop; other site 557760005790 ATP binding site [chemical binding]; other site 557760005791 Q-loop/lid; other site 557760005792 ABC transporter signature motif; other site 557760005793 Walker B; other site 557760005794 D-loop; other site 557760005795 H-loop/switch region; other site 557760005796 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 557760005797 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 557760005798 acyl-activating enzyme (AAE) consensus motif; other site 557760005799 putative AMP binding site [chemical binding]; other site 557760005800 putative active site [active] 557760005801 putative CoA binding site [chemical binding]; other site 557760005802 PAS fold; Region: PAS_7; pfam12860 557760005803 PAS domain; Region: PAS_10; pfam13596 557760005804 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760005805 ATP binding site [chemical binding]; other site 557760005806 Mg2+ binding site [ion binding]; other site 557760005807 G-X-G motif; other site 557760005808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760005809 phosphorylation site [posttranslational modification] 557760005810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760005811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760005812 active site 557760005813 phosphorylation site [posttranslational modification] 557760005814 intermolecular recognition site; other site 557760005815 dimerization interface [polypeptide binding]; other site 557760005816 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 557760005817 DNA binding site [nucleotide binding] 557760005818 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 557760005819 Chromate transporter; Region: Chromate_transp; pfam02417 557760005820 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 557760005821 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 557760005822 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 557760005823 RNA binding surface [nucleotide binding]; other site 557760005824 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 557760005825 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 557760005826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760005827 homodimer interface [polypeptide binding]; other site 557760005828 catalytic residue [active] 557760005829 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 557760005830 prephenate dehydrogenase; Validated; Region: PRK08507 557760005831 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 557760005832 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 557760005833 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 557760005834 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 557760005835 putative active site pocket [active] 557760005836 dimerization interface [polypeptide binding]; other site 557760005837 putative catalytic residue [active] 557760005838 hypothetical protein; Validated; Region: PRK09039 557760005839 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760005840 ligand binding site [chemical binding]; other site 557760005841 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 557760005842 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 557760005843 Walker A motif; other site 557760005844 ATP binding site [chemical binding]; other site 557760005845 Walker B motif; other site 557760005846 arginine finger; other site 557760005847 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 557760005848 Walker A motif; other site 557760005849 ATP binding site [chemical binding]; other site 557760005850 Walker B motif; other site 557760005851 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557760005852 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 557760005853 Methyltransferase domain; Region: Methyltransf_23; pfam13489 557760005854 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 557760005855 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 557760005856 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 557760005857 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 557760005858 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557760005859 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 557760005860 beta subunit interaction interface [polypeptide binding]; other site 557760005861 Walker A motif; other site 557760005862 ATP binding site [chemical binding]; other site 557760005863 Walker B motif; other site 557760005864 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557760005865 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 557760005866 core domain interface [polypeptide binding]; other site 557760005867 delta subunit interface [polypeptide binding]; other site 557760005868 epsilon subunit interface [polypeptide binding]; other site 557760005869 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 557760005870 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557760005871 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 557760005872 alpha subunit interaction interface [polypeptide binding]; other site 557760005873 Walker A motif; other site 557760005874 ATP binding site [chemical binding]; other site 557760005875 Walker B motif; other site 557760005876 inhibitor binding site; inhibition site 557760005877 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557760005878 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 557760005879 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 557760005880 gamma subunit interface [polypeptide binding]; other site 557760005881 epsilon subunit interface [polypeptide binding]; other site 557760005882 LBP interface [polypeptide binding]; other site 557760005883 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557760005884 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557760005885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760005886 active site 557760005887 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 557760005888 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 557760005889 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760005890 catalytic residue [active] 557760005891 hypothetical protein; Provisional; Region: PRK05170 557760005892 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 557760005893 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 557760005894 active site 557760005895 Riboflavin kinase; Region: Flavokinase; pfam01687 557760005896 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 557760005897 dimer interaction site [polypeptide binding]; other site 557760005898 substrate-binding tunnel; other site 557760005899 active site 557760005900 catalytic site [active] 557760005901 substrate binding site [chemical binding]; other site 557760005902 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 557760005903 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 557760005904 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 557760005905 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 557760005906 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 557760005907 DHHA2 domain; Region: DHHA2; pfam02833 557760005908 TraB family; Region: TraB; pfam01963 557760005909 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 557760005910 oligomerisation interface [polypeptide binding]; other site 557760005911 mobile loop; other site 557760005912 roof hairpin; other site 557760005913 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557760005914 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 557760005915 ring oligomerisation interface [polypeptide binding]; other site 557760005916 ATP/Mg binding site [chemical binding]; other site 557760005917 stacking interactions; other site 557760005918 hinge regions; other site 557760005919 Bacterial SH3 domain; Region: SH3_4; pfam06347 557760005920 Bacterial SH3 domain; Region: SH3_4; pfam06347 557760005921 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557760005922 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 557760005923 dimerization interface [polypeptide binding]; other site 557760005924 ligand binding site [chemical binding]; other site 557760005925 NADP binding site [chemical binding]; other site 557760005926 catalytic site [active] 557760005927 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 557760005928 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557760005929 active site 557760005930 catalytic tetrad [active] 557760005931 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760005932 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557760005933 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557760005934 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 557760005935 putative active site [active] 557760005936 metal binding site [ion binding]; metal-binding site 557760005937 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557760005938 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 557760005939 NAD(P) binding site [chemical binding]; other site 557760005940 catalytic residues [active] 557760005941 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557760005942 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557760005943 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760005944 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760005945 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760005946 DctM-like transporters; Region: DctM; pfam06808 557760005947 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 557760005948 N-formylglutamate amidohydrolase; Region: FGase; cl01522 557760005949 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 557760005950 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557760005951 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 557760005952 putative active site [active] 557760005953 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 557760005954 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 557760005955 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557760005956 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557760005957 rod shape-determining protein MreC; Provisional; Region: PRK13922 557760005958 rod shape-determining protein MreC; Region: MreC; pfam04085 557760005959 rod shape-determining protein MreB; Provisional; Region: PRK13927 557760005960 MreB and similar proteins; Region: MreB_like; cd10225 557760005961 nucleotide binding site [chemical binding]; other site 557760005962 Mg binding site [ion binding]; other site 557760005963 putative protofilament interaction site [polypeptide binding]; other site 557760005964 RodZ interaction site [polypeptide binding]; other site 557760005965 2-isopropylmalate synthase; Validated; Region: PRK00915 557760005966 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 557760005967 active site 557760005968 catalytic residues [active] 557760005969 metal binding site [ion binding]; metal-binding site 557760005970 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 557760005971 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 557760005972 pseudoazurin; Region: pseudoazurin; TIGR02375 557760005973 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 557760005974 Uncharacterized conserved protein [Function unknown]; Region: COG1262 557760005975 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 557760005976 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 557760005977 Multicopper oxidase; Region: Cu-oxidase; pfam00394 557760005978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 557760005979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 557760005980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 557760005981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 557760005982 MORN repeat; Region: MORN; cl14787 557760005983 NAD synthetase; Provisional; Region: PRK13981 557760005984 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 557760005985 multimer interface [polypeptide binding]; other site 557760005986 active site 557760005987 catalytic triad [active] 557760005988 protein interface 1 [polypeptide binding]; other site 557760005989 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 557760005990 homodimer interface [polypeptide binding]; other site 557760005991 NAD binding pocket [chemical binding]; other site 557760005992 ATP binding pocket [chemical binding]; other site 557760005993 Mg binding site [ion binding]; other site 557760005994 active-site loop [active] 557760005995 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 557760005996 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 557760005997 putative substrate binding site [chemical binding]; other site 557760005998 putative ATP binding site [chemical binding]; other site 557760005999 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557760006000 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557760006001 Peptidase family M48; Region: Peptidase_M48; cl12018 557760006002 PRC-barrel domain; Region: PRC; pfam05239 557760006003 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 557760006004 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557760006005 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 557760006006 FeS/SAM binding site; other site 557760006007 hypothetical protein; Provisional; Region: PRK07550 557760006008 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 557760006009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760006010 homodimer interface [polypeptide binding]; other site 557760006011 catalytic residue [active] 557760006012 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760006013 active site 557760006014 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557760006015 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 557760006016 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557760006017 NAD binding site [chemical binding]; other site 557760006018 homotetramer interface [polypeptide binding]; other site 557760006019 homodimer interface [polypeptide binding]; other site 557760006020 substrate binding site [chemical binding]; other site 557760006021 active site 557760006022 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 557760006023 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 557760006024 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 557760006025 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760006026 DNA-binding site [nucleotide binding]; DNA binding site 557760006027 RNA-binding motif; other site 557760006028 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760006029 DNA-binding site [nucleotide binding]; DNA binding site 557760006030 RNA-binding motif; other site 557760006031 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 557760006032 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557760006033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760006034 DNA-binding site [nucleotide binding]; DNA binding site 557760006035 UTRA domain; Region: UTRA; pfam07702 557760006036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760006037 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760006038 NAD(P) binding site [chemical binding]; other site 557760006039 active site 557760006040 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 557760006041 intersubunit interface [polypeptide binding]; other site 557760006042 active site 557760006043 Zn2+ binding site [ion binding]; other site 557760006044 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 557760006045 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557760006046 putative ligand binding site [chemical binding]; other site 557760006047 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 557760006048 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760006049 Walker A/P-loop; other site 557760006050 ATP binding site [chemical binding]; other site 557760006051 Q-loop/lid; other site 557760006052 ABC transporter signature motif; other site 557760006053 Walker B; other site 557760006054 D-loop; other site 557760006055 H-loop/switch region; other site 557760006056 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760006057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760006058 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760006059 TM-ABC transporter signature motif; other site 557760006060 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760006061 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760006062 TM-ABC transporter signature motif; other site 557760006063 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 557760006064 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760006065 substrate binding site [chemical binding]; other site 557760006066 ATP binding site [chemical binding]; other site 557760006067 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760006068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760006069 NAD(P) binding site [chemical binding]; other site 557760006070 active site 557760006071 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 557760006072 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557760006073 NAD binding site [chemical binding]; other site 557760006074 catalytic residues [active] 557760006075 Uncharacterized conserved protein [Function unknown]; Region: COG0397 557760006076 hypothetical protein; Validated; Region: PRK00029 557760006077 2-amino-3-ketobutyrate coenzyme A ligase; Provisional; Region: PRK06939 557760006078 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 557760006079 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760006080 catalytic residue [active] 557760006081 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 557760006082 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 557760006083 NAD(P) binding site [chemical binding]; other site 557760006084 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 557760006085 Cytochrome P450; Region: p450; cl12078 557760006086 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 557760006087 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 557760006088 heme binding pocket [chemical binding]; other site 557760006089 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 557760006090 domain interactions; other site 557760006091 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 557760006092 active site 557760006093 DNA binding site [nucleotide binding] 557760006094 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 557760006095 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 557760006096 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 557760006097 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 557760006098 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 557760006099 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 557760006100 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 557760006101 nudix motif; other site 557760006102 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 557760006103 catalytic residues [active] 557760006104 dimer interface [polypeptide binding]; other site 557760006105 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557760006106 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 557760006107 active site 557760006108 Zn binding site [ion binding]; other site 557760006109 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 557760006110 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 557760006111 NnrU protein; Region: NnrU; pfam07298 557760006112 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 557760006113 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 557760006114 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 557760006115 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 557760006116 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 557760006117 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760006118 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760006119 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 557760006120 dimer interface [polypeptide binding]; other site 557760006121 conserved gate region; other site 557760006122 putative PBP binding loops; other site 557760006123 ABC-ATPase subunit interface; other site 557760006124 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 557760006125 dimer interface [polypeptide binding]; other site 557760006126 conserved gate region; other site 557760006127 putative PBP binding loops; other site 557760006128 ABC-ATPase subunit interface; other site 557760006129 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760006130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760006131 Walker A/P-loop; other site 557760006132 ATP binding site [chemical binding]; other site 557760006133 Q-loop/lid; other site 557760006134 ABC transporter signature motif; other site 557760006135 Walker B; other site 557760006136 D-loop; other site 557760006137 H-loop/switch region; other site 557760006138 TOBE domain; Region: TOBE_2; pfam08402 557760006139 amidase; Provisional; Region: PRK07869 557760006140 Amidase; Region: Amidase; cl11426 557760006141 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 557760006142 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760006143 N-terminal plug; other site 557760006144 ligand-binding site [chemical binding]; other site 557760006145 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557760006146 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 557760006147 intersubunit interface [polypeptide binding]; other site 557760006148 FecCD transport family; Region: FecCD; pfam01032 557760006149 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 557760006150 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557760006151 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 557760006152 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760006153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760006154 dimer interface [polypeptide binding]; other site 557760006155 phosphorylation site [posttranslational modification] 557760006156 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760006157 ATP binding site [chemical binding]; other site 557760006158 Mg2+ binding site [ion binding]; other site 557760006159 G-X-G motif; other site 557760006160 Response regulator receiver domain; Region: Response_reg; pfam00072 557760006161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006162 active site 557760006163 phosphorylation site [posttranslational modification] 557760006164 intermolecular recognition site; other site 557760006165 dimerization interface [polypeptide binding]; other site 557760006166 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 557760006167 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557760006168 RNA binding surface [nucleotide binding]; other site 557760006169 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557760006170 active site 557760006171 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 557760006172 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557760006173 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760006174 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 557760006175 DNA binding residues [nucleotide binding] 557760006176 Methyltransferase domain; Region: Methyltransf_12; pfam08242 557760006177 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 557760006178 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 557760006179 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 557760006180 active site 557760006181 Zn binding site [ion binding]; other site 557760006182 ATP-dependent DNA ligase; Validated; Region: PRK09247 557760006183 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 557760006184 active site 557760006185 DNA binding site [nucleotide binding] 557760006186 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 557760006187 DNA binding site [nucleotide binding] 557760006188 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 557760006189 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557760006190 Uncharacterized conserved protein [Function unknown]; Region: COG2308 557760006191 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 557760006192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 557760006193 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557760006194 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 557760006195 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557760006196 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 557760006197 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 557760006198 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557760006199 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557760006200 SCP-2 sterol transfer family; Region: SCP2; pfam02036 557760006201 TPR repeat; Region: TPR_11; pfam13414 557760006202 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760006203 binding surface 557760006204 TPR motif; other site 557760006205 TPR repeat; Region: TPR_11; pfam13414 557760006206 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 557760006207 nucleotide binding region [chemical binding]; other site 557760006208 ATP-binding site [chemical binding]; other site 557760006209 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 557760006210 RNA binding surface [nucleotide binding]; other site 557760006211 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557760006212 4Fe-4S binding domain; Region: Fer4; pfam00037 557760006213 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 557760006214 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 557760006215 cobalamin synthase; Reviewed; Region: cobS; PRK00235 557760006216 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 557760006217 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 557760006218 putative dimer interface [polypeptide binding]; other site 557760006219 active site pocket [active] 557760006220 putative cataytic base [active] 557760006221 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557760006222 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 557760006223 TrkA-N domain; Region: TrkA_N; pfam02254 557760006224 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 557760006225 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 557760006226 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 557760006227 homodimer interface [polypeptide binding]; other site 557760006228 substrate-cofactor binding pocket; other site 557760006229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760006230 catalytic residue [active] 557760006231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006232 Response regulator receiver domain; Region: Response_reg; pfam00072 557760006233 active site 557760006234 phosphorylation site [posttranslational modification] 557760006235 intermolecular recognition site; other site 557760006236 dimerization interface [polypeptide binding]; other site 557760006237 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557760006238 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 557760006239 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 557760006240 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 557760006241 putative CheA interaction surface; other site 557760006242 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 557760006243 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 557760006244 putative binding surface; other site 557760006245 active site 557760006246 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557760006247 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760006248 ATP binding site [chemical binding]; other site 557760006249 Mg2+ binding site [ion binding]; other site 557760006250 G-X-G motif; other site 557760006251 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 557760006252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006253 Response regulator receiver domain; Region: Response_reg; pfam00072 557760006254 active site 557760006255 phosphorylation site [posttranslational modification] 557760006256 intermolecular recognition site; other site 557760006257 dimerization interface [polypeptide binding]; other site 557760006258 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 557760006259 CheD chemotactic sensory transduction; Region: CheD; cl00810 557760006260 PAS domain; Region: PAS; smart00091 557760006261 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557760006262 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760006263 dimer interface [polypeptide binding]; other site 557760006264 putative CheW interface [polypeptide binding]; other site 557760006265 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557760006266 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557760006267 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 557760006268 dimerization interface [polypeptide binding]; other site 557760006269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760006270 dimer interface [polypeptide binding]; other site 557760006271 putative CheW interface [polypeptide binding]; other site 557760006272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006273 Response regulator receiver domain; Region: Response_reg; pfam00072 557760006274 active site 557760006275 phosphorylation site [posttranslational modification] 557760006276 intermolecular recognition site; other site 557760006277 dimerization interface [polypeptide binding]; other site 557760006278 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 557760006279 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 557760006280 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 557760006281 active site 557760006282 homodimer interface [polypeptide binding]; other site 557760006283 catalytic site [active] 557760006284 acceptor binding site [chemical binding]; other site 557760006285 trehalose synthase; Region: treS_nterm; TIGR02456 557760006286 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 557760006287 active site 557760006288 catalytic site [active] 557760006289 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 557760006290 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 557760006291 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 557760006292 glycogen branching enzyme; Provisional; Region: PRK05402 557760006293 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 557760006294 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 557760006295 active site 557760006296 catalytic site [active] 557760006297 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 557760006298 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 557760006299 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 557760006300 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 557760006301 active site 557760006302 catalytic site [active] 557760006303 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 557760006304 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 557760006305 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 557760006306 catalytic site [active] 557760006307 active site 557760006308 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 557760006309 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 557760006310 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 557760006311 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557760006312 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557760006313 active site 557760006314 catalytic site [active] 557760006315 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 557760006316 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 557760006317 classical (c) SDRs; Region: SDR_c; cd05233 557760006318 NAD(P) binding site [chemical binding]; other site 557760006319 active site 557760006320 amidophosphoribosyltransferase; Provisional; Region: PRK09123 557760006321 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 557760006322 active site 557760006323 tetramer interface [polypeptide binding]; other site 557760006324 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760006325 active site 557760006326 DNA repair protein RadA; Provisional; Region: PRK11823 557760006327 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 557760006328 Walker A motif/ATP binding site; other site 557760006329 ATP binding site [chemical binding]; other site 557760006330 Walker B motif; other site 557760006331 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557760006332 Paraquat-inducible protein A; Region: PqiA; pfam04403 557760006333 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 557760006334 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 557760006335 Walker A/P-loop; other site 557760006336 ATP binding site [chemical binding]; other site 557760006337 Q-loop/lid; other site 557760006338 ABC transporter signature motif; other site 557760006339 Walker B; other site 557760006340 D-loop; other site 557760006341 H-loop/switch region; other site 557760006342 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 557760006343 Permease; Region: Permease; pfam02405 557760006344 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 557760006345 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 557760006346 active site 557760006347 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557760006348 dimer interface [polypeptide binding]; other site 557760006349 substrate binding site [chemical binding]; other site 557760006350 catalytic residues [active] 557760006351 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 557760006352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760006353 NAD(P) binding site [chemical binding]; other site 557760006354 active site 557760006355 acyl carrier protein; Provisional; Region: acpP; PRK00982 557760006356 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 557760006357 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 557760006358 dimer interface [polypeptide binding]; other site 557760006359 active site 557760006360 YceG-like family; Region: YceG; pfam02618 557760006361 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 557760006362 dimerization interface [polypeptide binding]; other site 557760006363 Uncharacterized conserved protein [Function unknown]; Region: COG5323 557760006364 Terminase-like family; Region: Terminase_6; pfam03237 557760006365 Phage-related protein [Function unknown]; Region: COG4695 557760006366 Phage portal protein; Region: Phage_portal; pfam04860 557760006367 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 557760006368 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557760006369 Phage capsid family; Region: Phage_capsid; pfam05065 557760006370 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 557760006371 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 557760006372 oligomerization interface [polypeptide binding]; other site 557760006373 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557760006374 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 557760006375 Phage major tail protein 2; Region: Phage_tail_2; cl11463 557760006376 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 557760006377 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 557760006378 Phage-related minor tail protein [Function unknown]; Region: COG5281 557760006379 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 557760006380 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 557760006381 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 557760006382 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 557760006383 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557760006384 NlpC/P60 family; Region: NLPC_P60; cl17555 557760006385 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 557760006386 Putative phage tail protein; Region: Phage-tail_3; pfam13550 557760006387 serine acetyltransferase; Provisional; Region: cysE; PRK11132 557760006388 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 557760006389 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 557760006390 trimer interface [polypeptide binding]; other site 557760006391 active site 557760006392 substrate binding site [chemical binding]; other site 557760006393 CoA binding site [chemical binding]; other site 557760006394 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 557760006395 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 557760006396 E3 interaction surface; other site 557760006397 lipoyl attachment site [posttranslational modification]; other site 557760006398 e3 binding domain; Region: E3_binding; pfam02817 557760006399 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557760006400 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 557760006401 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 557760006402 E3 interaction surface; other site 557760006403 lipoyl attachment site [posttranslational modification]; other site 557760006404 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 557760006405 alpha subunit interface [polypeptide binding]; other site 557760006406 TPP binding site [chemical binding]; other site 557760006407 heterodimer interface [polypeptide binding]; other site 557760006408 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557760006409 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 557760006410 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 557760006411 tetramer interface [polypeptide binding]; other site 557760006412 TPP-binding site [chemical binding]; other site 557760006413 heterodimer interface [polypeptide binding]; other site 557760006414 phosphorylation loop region [posttranslational modification] 557760006415 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 557760006416 Septum formation initiator; Region: DivIC; pfam04977 557760006417 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 557760006418 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 557760006419 putative active site; other site 557760006420 catalytic residue [active] 557760006421 Phosphoglycerate kinase; Region: PGK; pfam00162 557760006422 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 557760006423 substrate binding site [chemical binding]; other site 557760006424 hinge regions; other site 557760006425 ADP binding site [chemical binding]; other site 557760006426 catalytic site [active] 557760006427 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 557760006428 active site 557760006429 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 557760006430 active site 557760006431 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 557760006432 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557760006433 active site 557760006434 HIGH motif; other site 557760006435 dimer interface [polypeptide binding]; other site 557760006436 KMSKS motif; other site 557760006437 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 557760006438 RNA binding surface [nucleotide binding]; other site 557760006439 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 557760006440 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 557760006441 enolase; Provisional; Region: eno; PRK00077 557760006442 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 557760006443 dimer interface [polypeptide binding]; other site 557760006444 metal binding site [ion binding]; metal-binding site 557760006445 substrate binding pocket [chemical binding]; other site 557760006446 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760006447 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557760006448 metal binding site 2 [ion binding]; metal-binding site 557760006449 putative DNA binding helix; other site 557760006450 metal binding site 1 [ion binding]; metal-binding site 557760006451 dimer interface [polypeptide binding]; other site 557760006452 structural Zn2+ binding site [ion binding]; other site 557760006453 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 557760006454 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 557760006455 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 557760006456 Transcriptional regulator; Region: Transcrip_reg; cl00361 557760006457 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 557760006458 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 557760006459 TSCPD domain; Region: TSCPD; pfam12637 557760006460 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 557760006461 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 557760006462 active site 557760006463 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 557760006464 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 557760006465 glutaminase active site [active] 557760006466 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 557760006467 dimer interface [polypeptide binding]; other site 557760006468 active site 557760006469 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 557760006470 dimer interface [polypeptide binding]; other site 557760006471 active site 557760006472 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 557760006473 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 557760006474 Substrate binding site; other site 557760006475 Mg++ binding site; other site 557760006476 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 557760006477 active site 557760006478 substrate binding site [chemical binding]; other site 557760006479 CoA binding site [chemical binding]; other site 557760006480 phosphoglycolate phosphatase; Provisional; Region: PRK13222 557760006481 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557760006482 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 557760006483 motif II; other site 557760006484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 557760006485 CreA protein; Region: CreA; pfam05981 557760006486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760006487 isovaleryl-CoA dehydrogenase; Region: PLN02519 557760006488 active site 557760006489 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 557760006490 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 557760006491 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 557760006492 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557760006493 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557760006494 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557760006495 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 557760006496 carboxyltransferase (CT) interaction site; other site 557760006497 biotinylation site [posttranslational modification]; other site 557760006498 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 557760006499 active site 557760006500 catalytic residues [active] 557760006501 metal binding site [ion binding]; metal-binding site 557760006502 enoyl-CoA hydratase; Provisional; Region: PRK07468 557760006503 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760006504 substrate binding site [chemical binding]; other site 557760006505 oxyanion hole (OAH) forming residues; other site 557760006506 trimer interface [polypeptide binding]; other site 557760006507 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 557760006508 NADH dehydrogenase subunit B; Validated; Region: PRK06411 557760006509 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 557760006510 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 557760006511 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 557760006512 NADH dehydrogenase subunit D; Validated; Region: PRK06075 557760006513 NADH dehydrogenase subunit E; Validated; Region: PRK07539 557760006514 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 557760006515 putative dimer interface [polypeptide binding]; other site 557760006516 [2Fe-2S] cluster binding site [ion binding]; other site 557760006517 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 557760006518 SLBB domain; Region: SLBB; pfam10531 557760006519 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 557760006520 NADH dehydrogenase subunit G; Validated; Region: PRK09130 557760006521 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 557760006522 catalytic loop [active] 557760006523 iron binding site [ion binding]; other site 557760006524 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 557760006525 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 557760006526 molybdopterin cofactor binding site; other site 557760006527 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 557760006528 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 557760006529 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 557760006530 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 557760006531 4Fe-4S binding domain; Region: Fer4; pfam00037 557760006532 4Fe-4S binding domain; Region: Fer4; pfam00037 557760006533 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 557760006534 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 557760006535 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 557760006536 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 557760006537 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 557760006538 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 557760006539 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 557760006540 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760006541 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 557760006542 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760006543 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 557760006544 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760006545 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 557760006546 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 557760006547 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 557760006548 pantothenate kinase; Reviewed; Region: PRK13318 557760006549 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 557760006550 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 557760006551 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 557760006552 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 557760006553 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557760006554 ATP binding site [chemical binding]; other site 557760006555 Mg++ binding site [ion binding]; other site 557760006556 motif III; other site 557760006557 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 557760006558 nucleotide binding region [chemical binding]; other site 557760006559 ATP-binding site [chemical binding]; other site 557760006560 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 557760006561 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 557760006562 G1 box; other site 557760006563 putative GEF interaction site [polypeptide binding]; other site 557760006564 GTP/Mg2+ binding site [chemical binding]; other site 557760006565 Switch I region; other site 557760006566 G2 box; other site 557760006567 G3 box; other site 557760006568 Switch II region; other site 557760006569 G4 box; other site 557760006570 G5 box; other site 557760006571 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 557760006572 short chain dehydrogenase; Provisional; Region: PRK08339 557760006573 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 557760006574 putative NAD(P) binding site [chemical binding]; other site 557760006575 putative active site [active] 557760006576 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760006577 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557760006578 Walker A/P-loop; other site 557760006579 ATP binding site [chemical binding]; other site 557760006580 Q-loop/lid; other site 557760006581 ABC transporter signature motif; other site 557760006582 Walker B; other site 557760006583 D-loop; other site 557760006584 H-loop/switch region; other site 557760006585 TOBE domain; Region: TOBE_2; pfam08402 557760006586 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 557760006587 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 557760006588 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 557760006589 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 557760006590 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 557760006591 Walker A motif; other site 557760006592 ATP binding site [chemical binding]; other site 557760006593 Walker B motif; other site 557760006594 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557760006595 Peptidase family M23; Region: Peptidase_M23; pfam01551 557760006596 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 557760006597 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 557760006598 S-adenosylmethionine binding site [chemical binding]; other site 557760006599 stationary phase survival protein SurE; Provisional; Region: PRK13931 557760006600 Bacterial sugar transferase; Region: Bac_transf; pfam02397 557760006601 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 557760006602 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 557760006603 SLBB domain; Region: SLBB; pfam10531 557760006604 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 557760006605 O-Antigen ligase; Region: Wzy_C; pfam04932 557760006606 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 557760006607 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 557760006608 active site 557760006609 catalytic residues [active] 557760006610 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557760006611 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 557760006612 active site 557760006613 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557760006614 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 557760006615 active site 557760006616 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 557760006617 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 557760006618 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 557760006619 active site 557760006620 dimer interface [polypeptide binding]; other site 557760006621 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 557760006622 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 557760006623 Ligand Binding Site [chemical binding]; other site 557760006624 Molecular Tunnel; other site 557760006625 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 557760006626 active site 557760006627 nucleotide-binding site [chemical binding]; other site 557760006628 metal-binding site [ion binding] 557760006629 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557760006630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760006631 Walker A/P-loop; other site 557760006632 ATP binding site [chemical binding]; other site 557760006633 Q-loop/lid; other site 557760006634 ABC transporter signature motif; other site 557760006635 Walker B; other site 557760006636 D-loop; other site 557760006637 H-loop/switch region; other site 557760006638 Chain length determinant protein; Region: Wzz; pfam02706 557760006639 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 557760006640 Chain length determinant protein; Region: Wzz; cl15801 557760006641 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 557760006642 P-loop; other site 557760006643 Magnesium ion binding site [ion binding]; other site 557760006644 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557760006645 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 557760006646 active site 557760006647 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557760006648 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 557760006649 Ligand binding site; other site 557760006650 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557760006651 tetramer interface; other site 557760006652 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 557760006653 active site 557760006654 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760006655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760006656 NAD(P) binding site [chemical binding]; other site 557760006657 active site 557760006658 active site 557760006659 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 557760006660 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 557760006661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760006662 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760006663 NAD(P) binding site [chemical binding]; other site 557760006664 active site 557760006665 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 557760006666 intracellular protease, PfpI family; Region: PfpI; TIGR01382 557760006667 proposed catalytic triad [active] 557760006668 conserved cys residue [active] 557760006669 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 557760006670 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 557760006671 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760006672 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 557760006673 ligand binding site [chemical binding]; other site 557760006674 flexible hinge region; other site 557760006675 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 557760006676 putative switch regulator; other site 557760006677 non-specific DNA interactions [nucleotide binding]; other site 557760006678 DNA binding site [nucleotide binding] 557760006679 sequence specific DNA binding site [nucleotide binding]; other site 557760006680 putative cAMP binding site [chemical binding]; other site 557760006681 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760006682 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 557760006683 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 557760006684 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 557760006685 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 557760006686 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 557760006687 substrate binding site [chemical binding]; other site 557760006688 catalytic Zn binding site [ion binding]; other site 557760006689 NAD binding site [chemical binding]; other site 557760006690 structural Zn binding site [ion binding]; other site 557760006691 dimer interface [polypeptide binding]; other site 557760006692 Cytochrome c2 [Energy production and conversion]; Region: COG3474 557760006693 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 557760006694 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 557760006695 Trp docking motif [polypeptide binding]; other site 557760006696 dimer interface [polypeptide binding]; other site 557760006697 active site 557760006698 small subunit binding site [polypeptide binding]; other site 557760006699 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 557760006700 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557760006701 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 557760006702 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 557760006703 substrate binding pocket [chemical binding]; other site 557760006704 membrane-bound complex binding site; other site 557760006705 hinge residues; other site 557760006706 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 557760006707 active site residue [active] 557760006708 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 557760006709 ligand binding site [chemical binding]; other site 557760006710 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 557760006711 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 557760006712 structural tetrad; other site 557760006713 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 557760006714 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 557760006715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760006716 Walker A/P-loop; other site 557760006717 ATP binding site [chemical binding]; other site 557760006718 Q-loop/lid; other site 557760006719 ABC transporter signature motif; other site 557760006720 Walker B; other site 557760006721 D-loop; other site 557760006722 H-loop/switch region; other site 557760006723 ABC-2 type transporter; Region: ABC2_membrane; cl17235 557760006724 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 557760006725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557760006726 Predicted secreted protein [Function unknown]; Region: COG5501 557760006727 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 557760006728 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 557760006729 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760006730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006731 active site 557760006732 phosphorylation site [posttranslational modification] 557760006733 intermolecular recognition site; other site 557760006734 dimerization interface [polypeptide binding]; other site 557760006735 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 557760006736 DNA binding residues [nucleotide binding] 557760006737 dimerization interface [polypeptide binding]; other site 557760006738 Uncharacterized conserved protein [Function unknown]; Region: COG3287 557760006739 FIST N domain; Region: FIST; pfam08495 557760006740 FIST C domain; Region: FIST_C; pfam10442 557760006741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760006742 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760006743 dimer interface [polypeptide binding]; other site 557760006744 phosphorylation site [posttranslational modification] 557760006745 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760006746 ATP binding site [chemical binding]; other site 557760006747 Mg2+ binding site [ion binding]; other site 557760006748 G-X-G motif; other site 557760006749 cheY-homologous receiver domain; Region: REC; smart00448 557760006750 active site 557760006751 phosphorylation site [posttranslational modification] 557760006752 intermolecular recognition site; other site 557760006753 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760006754 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760006755 Walker A/P-loop; other site 557760006756 ATP binding site [chemical binding]; other site 557760006757 Q-loop/lid; other site 557760006758 ABC transporter signature motif; other site 557760006759 Walker B; other site 557760006760 D-loop; other site 557760006761 H-loop/switch region; other site 557760006762 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557760006763 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760006764 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 557760006765 dimer interface [polypeptide binding]; other site 557760006766 conserved gate region; other site 557760006767 putative PBP binding loops; other site 557760006768 ABC-ATPase subunit interface; other site 557760006769 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 557760006770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006771 active site 557760006772 phosphorylation site [posttranslational modification] 557760006773 intermolecular recognition site; other site 557760006774 dimerization interface [polypeptide binding]; other site 557760006775 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 557760006776 DNA binding site [nucleotide binding] 557760006777 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 557760006778 PhoU domain; Region: PhoU; pfam01895 557760006779 PhoU domain; Region: PhoU; pfam01895 557760006780 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 557760006781 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 557760006782 Walker A/P-loop; other site 557760006783 ATP binding site [chemical binding]; other site 557760006784 Q-loop/lid; other site 557760006785 ABC transporter signature motif; other site 557760006786 Walker B; other site 557760006787 D-loop; other site 557760006788 H-loop/switch region; other site 557760006789 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 557760006790 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 557760006791 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 557760006792 dimer interface [polypeptide binding]; other site 557760006793 conserved gate region; other site 557760006794 putative PBP binding loops; other site 557760006795 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 557760006796 ABC-ATPase subunit interface; other site 557760006797 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 557760006798 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 557760006799 dimer interface [polypeptide binding]; other site 557760006800 conserved gate region; other site 557760006801 putative PBP binding loops; other site 557760006802 ABC-ATPase subunit interface; other site 557760006803 PBP superfamily domain; Region: PBP_like_2; pfam12849 557760006804 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 557760006805 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 557760006806 dimerization interface [polypeptide binding]; other site 557760006807 putative DNA binding site [nucleotide binding]; other site 557760006808 putative Zn2+ binding site [ion binding]; other site 557760006809 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 557760006810 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557760006811 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 557760006812 Cl binding site [ion binding]; other site 557760006813 oligomer interface [polypeptide binding]; other site 557760006814 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 557760006815 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 557760006816 trimer interface [polypeptide binding]; other site 557760006817 active site 557760006818 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 557760006819 trimer interface [polypeptide binding]; other site 557760006820 active site 557760006821 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 557760006822 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557760006823 DNA binding residues [nucleotide binding] 557760006824 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 557760006825 IHF dimer interface [polypeptide binding]; other site 557760006826 IHF - DNA interface [nucleotide binding]; other site 557760006827 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 557760006828 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 557760006829 dimer interface [polypeptide binding]; other site 557760006830 active site 557760006831 CoA binding pocket [chemical binding]; other site 557760006832 putative phosphate acyltransferase; Provisional; Region: PRK05331 557760006833 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 557760006834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557760006835 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 557760006836 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 557760006837 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 557760006838 methionine sulfoxide reductase B; Provisional; Region: PRK00222 557760006839 SelR domain; Region: SelR; pfam01641 557760006840 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 557760006841 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557760006842 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 557760006843 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 557760006844 Ligand Binding Site [chemical binding]; other site 557760006845 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 557760006846 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760006847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760006848 active site 557760006849 phosphorylation site [posttranslational modification] 557760006850 intermolecular recognition site; other site 557760006851 dimerization interface [polypeptide binding]; other site 557760006852 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 557760006853 DNA binding site [nucleotide binding] 557760006854 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 557760006855 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 557760006856 nucleotide binding pocket [chemical binding]; other site 557760006857 K-X-D-G motif; other site 557760006858 catalytic site [active] 557760006859 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 557760006860 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 557760006861 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 557760006862 Dimer interface [polypeptide binding]; other site 557760006863 BRCT sequence motif; other site 557760006864 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 557760006865 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 557760006866 generic binding surface II; other site 557760006867 ssDNA binding site; other site 557760006868 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 557760006869 ATP binding site [chemical binding]; other site 557760006870 putative Mg++ binding site [ion binding]; other site 557760006871 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 557760006872 nucleotide binding region [chemical binding]; other site 557760006873 ATP-binding site [chemical binding]; other site 557760006874 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 557760006875 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557760006876 trimerization site [polypeptide binding]; other site 557760006877 active site 557760006878 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 557760006879 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 557760006880 active site 557760006881 HIGH motif; other site 557760006882 nucleotide binding site [chemical binding]; other site 557760006883 active site 557760006884 KMSKS motif; other site 557760006885 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 557760006886 Glucose inhibited division protein A; Region: GIDA; pfam01134 557760006887 DNA gyrase subunit A; Validated; Region: PRK05560 557760006888 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 557760006889 CAP-like domain; other site 557760006890 active site 557760006891 primary dimer interface [polypeptide binding]; other site 557760006892 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557760006893 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557760006894 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557760006895 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557760006896 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557760006897 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557760006898 Usg-like family; Region: Usg; pfam06233 557760006899 agmatinase; Region: agmatinase; TIGR01230 557760006900 Arginase family; Region: Arginase; cd09989 557760006901 active site 557760006902 Mn binding site [ion binding]; other site 557760006903 oligomer interface [polypeptide binding]; other site 557760006904 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 557760006905 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 557760006906 enoyl-CoA hydratase; Provisional; Region: PRK08140 557760006907 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760006908 substrate binding site [chemical binding]; other site 557760006909 oxyanion hole (OAH) forming residues; other site 557760006910 trimer interface [polypeptide binding]; other site 557760006911 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 557760006912 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 557760006913 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 557760006914 putative valine binding site [chemical binding]; other site 557760006915 dimer interface [polypeptide binding]; other site 557760006916 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 557760006917 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 557760006918 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557760006919 PYR/PP interface [polypeptide binding]; other site 557760006920 dimer interface [polypeptide binding]; other site 557760006921 TPP binding site [chemical binding]; other site 557760006922 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557760006923 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 557760006924 TPP-binding site [chemical binding]; other site 557760006925 dimer interface [polypeptide binding]; other site 557760006926 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 557760006927 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 557760006928 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 557760006929 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 557760006930 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 557760006931 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 557760006932 RDD family; Region: RDD; pfam06271 557760006933 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 557760006934 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 557760006935 putative deacylase active site [active] 557760006936 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557760006937 metal binding triad; other site 557760006938 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557760006939 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557760006940 metal binding triad; other site 557760006941 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 557760006942 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 557760006943 active site 557760006944 intersubunit interface [polypeptide binding]; other site 557760006945 catalytic residue [active] 557760006946 phosphogluconate dehydratase; Validated; Region: PRK09054 557760006947 6-phosphogluconate dehydratase; Region: edd; TIGR01196 557760006948 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 557760006949 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 557760006950 putative RNA binding site [nucleotide binding]; other site 557760006951 PIN domain; Region: PIN_3; pfam13470 557760006952 Peptidase family M48; Region: Peptidase_M48; cl12018 557760006953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 557760006954 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 557760006955 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557760006956 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760006957 Coenzyme A binding pocket [chemical binding]; other site 557760006958 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557760006959 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 557760006960 Walker A motif; other site 557760006961 ATP binding site [chemical binding]; other site 557760006962 Walker B motif; other site 557760006963 arginine finger; other site 557760006964 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 557760006965 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557760006966 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 557760006967 CoenzymeA binding site [chemical binding]; other site 557760006968 subunit interaction site [polypeptide binding]; other site 557760006969 PHB binding site; other site 557760006970 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 557760006971 putative catalytic site [active] 557760006972 putative phosphate binding site [ion binding]; other site 557760006973 active site 557760006974 metal binding site A [ion binding]; metal-binding site 557760006975 DNA binding site [nucleotide binding] 557760006976 putative AP binding site [nucleotide binding]; other site 557760006977 putative metal binding site B [ion binding]; other site 557760006978 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 557760006979 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 557760006980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557760006981 Zn2+ binding site [ion binding]; other site 557760006982 Mg2+ binding site [ion binding]; other site 557760006983 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 557760006984 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 557760006985 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 557760006986 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 557760006987 putative active site [active] 557760006988 metal binding site [ion binding]; metal-binding site 557760006989 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 557760006990 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557760006991 N- and C-terminal domain interface [polypeptide binding]; other site 557760006992 active site 557760006993 MgATP binding site [chemical binding]; other site 557760006994 catalytic site [active] 557760006995 metal binding site [ion binding]; metal-binding site 557760006996 glycerol binding site [chemical binding]; other site 557760006997 homotetramer interface [polypeptide binding]; other site 557760006998 homodimer interface [polypeptide binding]; other site 557760006999 FBP binding site [chemical binding]; other site 557760007000 protein IIAGlc interface [polypeptide binding]; other site 557760007001 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760007002 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 557760007003 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760007004 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 557760007005 dimer interface [polypeptide binding]; other site 557760007006 conserved gate region; other site 557760007007 putative PBP binding loops; other site 557760007008 ABC-ATPase subunit interface; other site 557760007009 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 557760007010 dimer interface [polypeptide binding]; other site 557760007011 conserved gate region; other site 557760007012 putative PBP binding loops; other site 557760007013 ABC-ATPase subunit interface; other site 557760007014 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 557760007015 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557760007016 Walker A/P-loop; other site 557760007017 ATP binding site [chemical binding]; other site 557760007018 Q-loop/lid; other site 557760007019 ABC transporter signature motif; other site 557760007020 Walker B; other site 557760007021 D-loop; other site 557760007022 H-loop/switch region; other site 557760007023 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 557760007024 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557760007025 Walker A/P-loop; other site 557760007026 ATP binding site [chemical binding]; other site 557760007027 Q-loop/lid; other site 557760007028 ABC transporter signature motif; other site 557760007029 Walker B; other site 557760007030 D-loop; other site 557760007031 H-loop/switch region; other site 557760007032 TOBE domain; Region: TOBE_2; pfam08402 557760007033 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 557760007034 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 557760007035 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 557760007036 Trp docking motif [polypeptide binding]; other site 557760007037 putative active site [active] 557760007038 PRC-barrel domain; Region: PRC; pfam05239 557760007039 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 557760007040 BON domain; Region: BON; pfam04972 557760007041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 557760007042 DNA photolyase; Region: DNA_photolyase; pfam00875 557760007043 MgtC family; Region: MgtC; pfam02308 557760007044 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 557760007045 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 557760007046 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 557760007047 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 557760007048 active site 557760007049 DNA binding site [nucleotide binding] 557760007050 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 557760007051 DNA binding site [nucleotide binding] 557760007052 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 557760007053 nucleotide binding site [chemical binding]; other site 557760007054 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 557760007055 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760007056 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 557760007057 DNA binding residues [nucleotide binding] 557760007058 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 557760007059 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557760007060 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 557760007061 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 557760007062 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 557760007063 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 557760007064 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 557760007065 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557760007066 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 557760007067 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 557760007068 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 557760007069 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557760007070 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 557760007071 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557760007072 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 557760007073 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 557760007074 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 557760007075 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 557760007076 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557760007077 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760007078 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 557760007079 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 557760007080 Walker A/P-loop; other site 557760007081 ATP binding site [chemical binding]; other site 557760007082 Q-loop/lid; other site 557760007083 ABC transporter signature motif; other site 557760007084 Walker B; other site 557760007085 D-loop; other site 557760007086 H-loop/switch region; other site 557760007087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 557760007088 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 557760007089 Trp docking motif [polypeptide binding]; other site 557760007090 active site 557760007091 PQQ-like domain; Region: PQQ_2; pfam13360 557760007092 PQQ-like domain; Region: PQQ_2; pfam13360 557760007093 GTP-binding protein Der; Reviewed; Region: PRK00093 557760007094 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 557760007095 G1 box; other site 557760007096 GTP/Mg2+ binding site [chemical binding]; other site 557760007097 Switch I region; other site 557760007098 G2 box; other site 557760007099 Switch II region; other site 557760007100 G3 box; other site 557760007101 G4 box; other site 557760007102 G5 box; other site 557760007103 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 557760007104 G1 box; other site 557760007105 GTP/Mg2+ binding site [chemical binding]; other site 557760007106 Switch I region; other site 557760007107 G2 box; other site 557760007108 G3 box; other site 557760007109 Switch II region; other site 557760007110 G4 box; other site 557760007111 G5 box; other site 557760007112 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557760007113 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760007114 Walker A/P-loop; other site 557760007115 ATP binding site [chemical binding]; other site 557760007116 Q-loop/lid; other site 557760007117 ABC transporter signature motif; other site 557760007118 Walker B; other site 557760007119 D-loop; other site 557760007120 H-loop/switch region; other site 557760007121 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760007122 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760007123 Walker A/P-loop; other site 557760007124 ATP binding site [chemical binding]; other site 557760007125 Q-loop/lid; other site 557760007126 ABC transporter signature motif; other site 557760007127 Walker B; other site 557760007128 D-loop; other site 557760007129 H-loop/switch region; other site 557760007130 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760007131 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 557760007132 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 557760007133 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 557760007134 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760007135 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 557760007136 dimer interface [polypeptide binding]; other site 557760007137 conserved gate region; other site 557760007138 putative PBP binding loops; other site 557760007139 ABC-ATPase subunit interface; other site 557760007140 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557760007141 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_17; cd08503 557760007142 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 557760007143 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 557760007144 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 557760007145 putative nucleotide binding site [chemical binding]; other site 557760007146 uridine monophosphate binding site [chemical binding]; other site 557760007147 homohexameric interface [polypeptide binding]; other site 557760007148 ribosome recycling factor; Reviewed; Region: frr; PRK00083 557760007149 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 557760007150 hinge region; other site 557760007151 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 557760007152 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 557760007153 catalytic residue [active] 557760007154 putative FPP diphosphate binding site; other site 557760007155 putative FPP binding hydrophobic cleft; other site 557760007156 dimer interface [polypeptide binding]; other site 557760007157 putative IPP diphosphate binding site; other site 557760007158 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 557760007159 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 557760007160 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 557760007161 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 557760007162 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 557760007163 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 557760007164 RIP metalloprotease RseP; Region: TIGR00054 557760007165 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 557760007166 active site 557760007167 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 557760007168 protein binding site [polypeptide binding]; other site 557760007169 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 557760007170 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 557760007171 putative substrate binding region [chemical binding]; other site 557760007172 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 557760007173 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557760007174 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557760007175 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557760007176 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557760007177 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557760007178 Surface antigen; Region: Bac_surface_Ag; pfam01103 557760007179 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 557760007180 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 557760007181 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 557760007182 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 557760007183 active site 557760007184 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 557760007185 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 557760007186 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 557760007187 ABC transporter ATPase component; Reviewed; Region: PRK11147 557760007188 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760007189 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760007190 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760007191 Q-loop/lid; other site 557760007192 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760007193 ABC transporter signature motif; other site 557760007194 Walker B; other site 557760007195 D-loop; other site 557760007196 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 557760007197 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760007198 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 557760007199 AsnC family; Region: AsnC_trans_reg; pfam01037 557760007200 Protein of unknown function (DUF419); Region: DUF419; pfam04237 557760007201 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 557760007202 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557760007203 active site 557760007204 HIGH motif; other site 557760007205 nucleotide binding site [chemical binding]; other site 557760007206 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557760007207 KMSKS motif; other site 557760007208 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557760007209 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 557760007210 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 557760007211 active site 557760007212 catalytic residues [active] 557760007213 metal binding site [ion binding]; metal-binding site 557760007214 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 557760007215 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 557760007216 S-adenosylmethionine binding site [chemical binding]; other site 557760007217 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 557760007218 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760007219 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 557760007220 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557760007221 minor groove reading motif; other site 557760007222 helix-hairpin-helix signature motif; other site 557760007223 substrate binding pocket [chemical binding]; other site 557760007224 active site 557760007225 Predicted esterase [General function prediction only]; Region: COG0400 557760007226 putative hydrolase; Provisional; Region: PRK11460 557760007227 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 557760007228 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 557760007229 active site 557760007230 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 557760007231 putative DNA binding site [nucleotide binding]; other site 557760007232 putative Zn2+ binding site [ion binding]; other site 557760007233 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557760007234 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557760007235 active site 557760007236 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 557760007237 dimerization interface [polypeptide binding]; other site 557760007238 putative DNA binding site [nucleotide binding]; other site 557760007239 putative Zn2+ binding site [ion binding]; other site 557760007240 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 557760007241 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 557760007242 arsenical-resistance protein; Region: acr3; TIGR00832 557760007243 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 557760007244 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557760007245 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 557760007246 putative substrate translocation pore; other site 557760007247 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 557760007248 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 557760007249 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 557760007250 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 557760007251 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 557760007252 putative active site [active] 557760007253 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 557760007254 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 557760007255 active site 557760007256 dimer interface [polypeptide binding]; other site 557760007257 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 557760007258 dimer interface [polypeptide binding]; other site 557760007259 active site 557760007260 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 557760007261 homotrimer interaction site [polypeptide binding]; other site 557760007262 putative active site [active] 557760007263 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 557760007264 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 557760007265 active site residue [active] 557760007266 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 557760007267 active site residue [active] 557760007268 putative inner membrane protein; Provisional; Region: PRK11099 557760007269 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 557760007270 Cytochrome c; Region: Cytochrom_C; cl11414 557760007271 Cytochrome c553 [Energy production and conversion]; Region: COG2863 557760007272 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 557760007273 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 557760007274 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 557760007275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 557760007276 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 557760007277 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 557760007278 catalytic loop [active] 557760007279 iron binding site [ion binding]; other site 557760007280 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 557760007281 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 557760007282 substrate binding pocket [chemical binding]; other site 557760007283 dimer interface [polypeptide binding]; other site 557760007284 inhibitor binding site; inhibition site 557760007285 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; cl00246 557760007286 FAD binding site [chemical binding]; other site 557760007287 Virulence factor; Region: Virulence_fact; pfam13769 557760007288 exopolyphosphatase; Region: exo_poly_only; TIGR03706 557760007289 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557760007290 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 557760007291 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 557760007292 Peptidase M15; Region: Peptidase_M15_3; cl01194 557760007293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 557760007294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 557760007295 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760007296 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760007297 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 557760007298 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 557760007299 trimer interface [polypeptide binding]; other site 557760007300 active site 557760007301 UDP-GlcNAc binding site [chemical binding]; other site 557760007302 lipid binding site [chemical binding]; lipid-binding site 557760007303 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 557760007304 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 557760007305 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 557760007306 dimer interface [polypeptide binding]; other site 557760007307 active site 557760007308 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 557760007309 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 557760007310 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 557760007311 tetramer interface [polypeptide binding]; other site 557760007312 heme binding pocket [chemical binding]; other site 557760007313 NADPH binding site [chemical binding]; other site 557760007314 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 557760007315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760007316 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 557760007317 dimerization interface [polypeptide binding]; other site 557760007318 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 557760007319 catalytic triad [active] 557760007320 dimer interface [polypeptide binding]; other site 557760007321 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 557760007322 amphipathic channel; other site 557760007323 Asn-Pro-Ala signature motifs; other site 557760007324 lipoyl synthase; Provisional; Region: PRK05481 557760007325 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 557760007326 FeS/SAM binding site; other site 557760007327 Cytochrome c; Region: Cytochrom_C; pfam00034 557760007328 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557760007329 Cytochrome c; Region: Cytochrom_C; pfam00034 557760007330 Cytochrome C' Region: Cytochrom_C_2; pfam01322 557760007331 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 557760007332 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760007333 active site 557760007334 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 557760007335 putative coenzyme Q binding site [chemical binding]; other site 557760007336 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 557760007337 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 557760007338 substrate binding site [chemical binding]; other site 557760007339 hexamer interface [polypeptide binding]; other site 557760007340 metal binding site [ion binding]; metal-binding site 557760007341 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760007342 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 557760007343 elongation factor Ts; Provisional; Region: tsf; PRK09377 557760007344 UBA/TS-N domain; Region: UBA; pfam00627 557760007345 Elongation factor TS; Region: EF_TS; pfam00889 557760007346 Elongation factor TS; Region: EF_TS; pfam00889 557760007347 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 557760007348 rRNA interaction site [nucleotide binding]; other site 557760007349 S8 interaction site; other site 557760007350 putative laminin-1 binding site; other site 557760007351 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 557760007352 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760007353 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 557760007354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760007355 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 557760007356 NAD(P) binding site [chemical binding]; other site 557760007357 active site 557760007358 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557760007359 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_14; cd08497 557760007360 Entericidin EcnA/B family; Region: Entericidin; cl02322 557760007361 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557760007362 Protein export membrane protein; Region: SecD_SecF; cl14618 557760007363 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557760007364 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760007365 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760007366 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760007367 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 557760007368 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 557760007369 catalytic residues [active] 557760007370 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 557760007371 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 557760007372 putative substrate translocation pore; other site 557760007373 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 557760007374 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 557760007375 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 557760007376 ATP binding site [chemical binding]; other site 557760007377 putative Mg++ binding site [ion binding]; other site 557760007378 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 557760007379 nucleotide binding region [chemical binding]; other site 557760007380 ATP-binding site [chemical binding]; other site 557760007381 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 557760007382 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 557760007383 dimer interface [polypeptide binding]; other site 557760007384 active site 557760007385 aspartate-rich active site metal binding site; other site 557760007386 allosteric magnesium binding site [ion binding]; other site 557760007387 Schiff base residues; other site 557760007388 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 557760007389 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557760007390 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557760007391 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557760007392 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 557760007393 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 557760007394 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 557760007395 active site 557760007396 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 557760007397 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 557760007398 HflX GTPase family; Region: HflX; cd01878 557760007399 G1 box; other site 557760007400 GTP/Mg2+ binding site [chemical binding]; other site 557760007401 Switch I region; other site 557760007402 G2 box; other site 557760007403 G3 box; other site 557760007404 Switch II region; other site 557760007405 G4 box; other site 557760007406 G5 box; other site 557760007407 bacterial Hfq-like; Region: Hfq; cd01716 557760007408 hexamer interface [polypeptide binding]; other site 557760007409 Sm1 motif; other site 557760007410 RNA binding site [nucleotide binding]; other site 557760007411 Sm2 motif; other site 557760007412 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557760007413 Cation transport protein; Region: TrkH; cl17365 557760007414 Cation transport protein; Region: TrkH; cl17365 557760007415 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 557760007416 TrkA-N domain; Region: TrkA_N; pfam02254 557760007417 TrkA-C domain; Region: TrkA_C; pfam02080 557760007418 TrkA-N domain; Region: TrkA_N; pfam02254 557760007419 TrkA-C domain; Region: TrkA_C; pfam02080 557760007420 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557760007421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760007422 active site 557760007423 phosphorylation site [posttranslational modification] 557760007424 intermolecular recognition site; other site 557760007425 dimerization interface [polypeptide binding]; other site 557760007426 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 557760007427 Walker A motif; other site 557760007428 ATP binding site [chemical binding]; other site 557760007429 Walker B motif; other site 557760007430 arginine finger; other site 557760007431 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760007432 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 557760007433 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 557760007434 dimerization interface [polypeptide binding]; other site 557760007435 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760007436 putative active site [active] 557760007437 heme pocket [chemical binding]; other site 557760007438 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760007439 dimer interface [polypeptide binding]; other site 557760007440 phosphorylation site [posttranslational modification] 557760007441 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760007442 ATP binding site [chemical binding]; other site 557760007443 Mg2+ binding site [ion binding]; other site 557760007444 G-X-G motif; other site 557760007445 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557760007446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760007447 active site 557760007448 phosphorylation site [posttranslational modification] 557760007449 intermolecular recognition site; other site 557760007450 dimerization interface [polypeptide binding]; other site 557760007451 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 557760007452 Walker A motif; other site 557760007453 ATP binding site [chemical binding]; other site 557760007454 Walker B motif; other site 557760007455 arginine finger; other site 557760007456 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 557760007457 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557760007458 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760007459 putative active site [active] 557760007460 heme pocket [chemical binding]; other site 557760007461 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760007462 dimer interface [polypeptide binding]; other site 557760007463 phosphorylation site [posttranslational modification] 557760007464 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760007465 ATP binding site [chemical binding]; other site 557760007466 Mg2+ binding site [ion binding]; other site 557760007467 G-X-G motif; other site 557760007468 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 557760007469 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 557760007470 FMN binding site [chemical binding]; other site 557760007471 active site 557760007472 catalytic residues [active] 557760007473 substrate binding site [chemical binding]; other site 557760007474 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 557760007475 substrate binding site; other site 557760007476 dimer interface; other site 557760007477 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 557760007478 homotrimer interaction site [polypeptide binding]; other site 557760007479 zinc binding site [ion binding]; other site 557760007480 CDP-binding sites; other site 557760007481 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 557760007482 tetramer interfaces [polypeptide binding]; other site 557760007483 binuclear metal-binding site [ion binding]; other site 557760007484 Competence-damaged protein; Region: CinA; pfam02464 557760007485 Predicted flavoproteins [General function prediction only]; Region: COG2081 557760007486 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760007487 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 557760007488 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 557760007489 homodimer interface [polypeptide binding]; other site 557760007490 Walker A motif; other site 557760007491 ATP binding site [chemical binding]; other site 557760007492 hydroxycobalamin binding site [chemical binding]; other site 557760007493 Walker B motif; other site 557760007494 NnrS protein; Region: NnrS; pfam05940 557760007495 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 557760007496 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 557760007497 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 557760007498 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 557760007499 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 557760007500 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557760007501 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557760007502 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 557760007503 Precorrin-8X methylmutase; Region: CbiC; pfam02570 557760007504 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 557760007505 active site 557760007506 SAM binding site [chemical binding]; other site 557760007507 homodimer interface [polypeptide binding]; other site 557760007508 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 557760007509 active site 557760007510 SAM binding site [chemical binding]; other site 557760007511 homodimer interface [polypeptide binding]; other site 557760007512 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 557760007513 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 557760007514 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 557760007515 active site 557760007516 putative homodimer interface [polypeptide binding]; other site 557760007517 SAM binding site [chemical binding]; other site 557760007518 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 557760007519 Methyltransferase domain; Region: Methyltransf_18; pfam12847 557760007520 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 557760007521 active site 557760007522 SAM binding site [chemical binding]; other site 557760007523 homodimer interface [polypeptide binding]; other site 557760007524 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557760007525 active site 557760007526 SAM binding site [chemical binding]; other site 557760007527 homodimer interface [polypeptide binding]; other site 557760007528 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 557760007529 active site 557760007530 SAM binding site [chemical binding]; other site 557760007531 homodimer interface [polypeptide binding]; other site 557760007532 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 557760007533 active site 557760007534 dimer interface [polypeptide binding]; other site 557760007535 metal binding site [ion binding]; metal-binding site 557760007536 shikimate kinase; Provisional; Region: PRK13946 557760007537 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 557760007538 ADP binding site [chemical binding]; other site 557760007539 magnesium binding site [ion binding]; other site 557760007540 putative shikimate binding site; other site 557760007541 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 557760007542 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 557760007543 active site 557760007544 DNA binding site [nucleotide binding] 557760007545 Int/Topo IB signature motif; other site 557760007546 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 557760007547 Domain of unknown function DUF21; Region: DUF21; pfam01595 557760007548 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 557760007549 Transporter associated domain; Region: CorC_HlyC; smart01091 557760007550 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 557760007551 Protein of unknown function (DUF330); Region: DUF330; cl01135 557760007552 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 557760007553 mce related protein; Region: MCE; pfam02470 557760007554 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 557760007555 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 557760007556 Walker A/P-loop; other site 557760007557 ATP binding site [chemical binding]; other site 557760007558 Q-loop/lid; other site 557760007559 ABC transporter signature motif; other site 557760007560 Walker B; other site 557760007561 D-loop; other site 557760007562 H-loop/switch region; other site 557760007563 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 557760007564 anti sigma factor interaction site; other site 557760007565 regulatory phosphorylation site [posttranslational modification]; other site 557760007566 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 557760007567 Permease; Region: Permease; pfam02405 557760007568 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 557760007569 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 557760007570 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 557760007571 Found in ATP-dependent protease La (LON); Region: LON; smart00464 557760007572 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 557760007573 Walker A motif; other site 557760007574 ATP binding site [chemical binding]; other site 557760007575 Walker B motif; other site 557760007576 arginine finger; other site 557760007577 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557760007578 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557760007579 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 557760007580 FMN binding site [chemical binding]; other site 557760007581 active site 557760007582 substrate binding site [chemical binding]; other site 557760007583 catalytic residue [active] 557760007584 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 557760007585 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 557760007586 multidrug efflux protein; Reviewed; Region: PRK09579 557760007587 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760007588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760007589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760007590 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 557760007591 GAF domain; Region: GAF; pfam01590 557760007592 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 557760007593 Walker A motif; other site 557760007594 ATP binding site [chemical binding]; other site 557760007595 Walker B motif; other site 557760007596 arginine finger; other site 557760007597 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760007598 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 557760007599 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 557760007600 NAD binding site [chemical binding]; other site 557760007601 substrate binding site [chemical binding]; other site 557760007602 catalytic Zn binding site [ion binding]; other site 557760007603 structural Zn binding site [ion binding]; other site 557760007604 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557760007605 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 557760007606 ATP/Mg binding site [chemical binding]; other site 557760007607 ring oligomerisation interface [polypeptide binding]; other site 557760007608 stacking interactions; other site 557760007609 hinge regions; other site 557760007610 Domain of unknown function DUF59; Region: DUF59; pfam01883 557760007611 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; cd01292 557760007612 active site 557760007613 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 557760007614 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 557760007615 dimerization interface [polypeptide binding]; other site 557760007616 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 557760007617 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 557760007618 catalytic loop [active] 557760007619 iron binding site [ion binding]; other site 557760007620 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 557760007621 FAD binding pocket [chemical binding]; other site 557760007622 conserved FAD binding motif [chemical binding]; other site 557760007623 phosphate binding motif [ion binding]; other site 557760007624 beta-alpha-beta structure motif; other site 557760007625 NAD binding pocket [chemical binding]; other site 557760007626 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 557760007627 dimerization interface [polypeptide binding]; other site 557760007628 putative path to active site cavity [active] 557760007629 diiron center [ion binding]; other site 557760007630 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 557760007631 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 557760007632 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 557760007633 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 557760007634 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 557760007635 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 557760007636 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 557760007637 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 557760007638 active site 557760007639 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557760007640 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760007641 Walker A/P-loop; other site 557760007642 ATP binding site [chemical binding]; other site 557760007643 Q-loop/lid; other site 557760007644 ABC transporter signature motif; other site 557760007645 Walker B; other site 557760007646 D-loop; other site 557760007647 H-loop/switch region; other site 557760007648 TOBE domain; Region: TOBE_2; pfam08402 557760007649 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760007650 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 557760007651 dimer interface [polypeptide binding]; other site 557760007652 ABC-ATPase subunit interface; other site 557760007653 putative PBP binding loops; other site 557760007654 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 557760007655 dimer interface [polypeptide binding]; other site 557760007656 conserved gate region; other site 557760007657 putative PBP binding loops; other site 557760007658 ABC-ATPase subunit interface; other site 557760007659 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760007660 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760007661 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 557760007662 beta-galactosidase; Region: BGL; TIGR03356 557760007663 glucokinase, proteobacterial type; Region: glk; TIGR00749 557760007664 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557760007665 nucleotide binding site [chemical binding]; other site 557760007666 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 557760007667 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 557760007668 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557760007669 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557760007670 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557760007671 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557760007672 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; cl00159 557760007673 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557760007674 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 557760007675 putative hydrophobic ligand binding site [chemical binding]; other site 557760007676 PAS fold; Region: PAS_7; pfam12860 557760007677 PAS fold; Region: PAS_7; pfam12860 557760007678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760007679 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760007680 dimer interface [polypeptide binding]; other site 557760007681 phosphorylation site [posttranslational modification] 557760007682 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760007683 ATP binding site [chemical binding]; other site 557760007684 Mg2+ binding site [ion binding]; other site 557760007685 G-X-G motif; other site 557760007686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760007687 Response regulator receiver domain; Region: Response_reg; pfam00072 557760007688 active site 557760007689 phosphorylation site [posttranslational modification] 557760007690 intermolecular recognition site; other site 557760007691 dimerization interface [polypeptide binding]; other site 557760007692 FIST N domain; Region: FIST; pfam08495 557760007693 Uncharacterized conserved protein [Function unknown]; Region: COG3287 557760007694 FIST C domain; Region: FIST_C; pfam10442 557760007695 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760007696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760007697 active site 557760007698 phosphorylation site [posttranslational modification] 557760007699 intermolecular recognition site; other site 557760007700 dimerization interface [polypeptide binding]; other site 557760007701 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 557760007702 DNA binding residues [nucleotide binding] 557760007703 dimerization interface [polypeptide binding]; other site 557760007704 phosphoglucomutase; Region: PLN02307 557760007705 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 557760007706 substrate binding site [chemical binding]; other site 557760007707 dimer interface [polypeptide binding]; other site 557760007708 active site 557760007709 metal binding site [ion binding]; metal-binding site 557760007710 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 557760007711 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 557760007712 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 557760007713 active site 557760007714 catalytic site [active] 557760007715 glycogen synthase; Provisional; Region: glgA; PRK00654 557760007716 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 557760007717 ADP-binding pocket [chemical binding]; other site 557760007718 homodimer interface [polypeptide binding]; other site 557760007719 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 557760007720 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 557760007721 ligand binding site; other site 557760007722 oligomer interface; other site 557760007723 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 557760007724 dimer interface [polypeptide binding]; other site 557760007725 N-terminal domain interface [polypeptide binding]; other site 557760007726 sulfate 1 binding site; other site 557760007727 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 557760007728 homodimer interface [polypeptide binding]; other site 557760007729 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 557760007730 active site pocket [active] 557760007731 Transcriptional regulator; Region: Rrf2; cl17282 557760007732 Predicted transcriptional regulator [Transcription]; Region: COG1959 557760007733 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557760007734 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 557760007735 DNA binding residues [nucleotide binding] 557760007736 dimer interface [polypeptide binding]; other site 557760007737 copper binding site [ion binding]; other site 557760007738 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 557760007739 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557760007740 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 557760007741 metal-binding site [ion binding] 557760007742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557760007743 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557760007744 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 557760007745 metal-binding site [ion binding] 557760007746 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 557760007747 active site 557760007748 multimer interface [polypeptide binding]; other site 557760007749 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557760007750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760007751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760007752 ABC transporter; Region: ABC_tran_2; pfam12848 557760007753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760007754 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 557760007755 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 557760007756 catalytic motif [active] 557760007757 Catalytic residue [active] 557760007758 DNA polymerase III subunit chi; Validated; Region: PRK05728 557760007759 multifunctional aminopeptidase A; Provisional; Region: PRK00913 557760007760 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 557760007761 interface (dimer of trimers) [polypeptide binding]; other site 557760007762 Substrate-binding/catalytic site; other site 557760007763 Zn-binding sites [ion binding]; other site 557760007764 Predicted permeases [General function prediction only]; Region: COG0795 557760007765 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557760007766 Predicted permeases [General function prediction only]; Region: COG0795 557760007767 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557760007768 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 557760007769 Organic solvent tolerance protein; Region: OstA_C; pfam04453 557760007770 SurA N-terminal domain; Region: SurA_N; pfam09312 557760007771 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 557760007772 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 557760007773 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 557760007774 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 557760007775 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 557760007776 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 557760007777 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 557760007778 S-adenosylmethionine binding site [chemical binding]; other site 557760007779 peptide chain release factor 1; Validated; Region: prfA; PRK00591 557760007780 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557760007781 RF-1 domain; Region: RF-1; pfam00472 557760007782 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 557760007783 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 557760007784 agmatinase; Region: agmatinase; TIGR01230 557760007785 oligomer interface [polypeptide binding]; other site 557760007786 putative active site [active] 557760007787 Mn binding site [ion binding]; other site 557760007788 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557760007789 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 557760007790 metal binding site [ion binding]; metal-binding site 557760007791 putative dimer interface [polypeptide binding]; other site 557760007792 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 557760007793 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 557760007794 homodimer interface [polypeptide binding]; other site 557760007795 metal binding site [ion binding]; metal-binding site 557760007796 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 557760007797 homodimer interface [polypeptide binding]; other site 557760007798 active site 557760007799 putative chemical substrate binding site [chemical binding]; other site 557760007800 metal binding site [ion binding]; metal-binding site 557760007801 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557760007802 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760007803 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 557760007804 active site 557760007805 tetramer interface [polypeptide binding]; other site 557760007806 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557760007807 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760007808 dimer interface [polypeptide binding]; other site 557760007809 phosphorylation site [posttranslational modification] 557760007810 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760007811 ATP binding site [chemical binding]; other site 557760007812 Mg2+ binding site [ion binding]; other site 557760007813 G-X-G motif; other site 557760007814 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 557760007815 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 557760007816 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760007817 catalytic residue [active] 557760007818 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 557760007819 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 557760007820 trimer interface [polypeptide binding]; other site 557760007821 putative metal binding site [ion binding]; other site 557760007822 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557760007823 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 557760007824 catalytic site [active] 557760007825 G-X2-G-X-G-K; other site 557760007826 hypothetical protein; Provisional; Region: PRK11820 557760007827 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 557760007828 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 557760007829 PAS domain; Region: PAS_5; pfam07310 557760007830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 557760007831 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 557760007832 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557760007833 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 557760007834 conserved cys residue [active] 557760007835 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760007836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760007837 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760007838 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 557760007839 putative ligand binding site [chemical binding]; other site 557760007840 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760007841 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760007842 Walker A/P-loop; other site 557760007843 ATP binding site [chemical binding]; other site 557760007844 Q-loop/lid; other site 557760007845 ABC transporter signature motif; other site 557760007846 Walker B; other site 557760007847 D-loop; other site 557760007848 H-loop/switch region; other site 557760007849 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557760007850 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760007851 Walker A/P-loop; other site 557760007852 ATP binding site [chemical binding]; other site 557760007853 Q-loop/lid; other site 557760007854 ABC transporter signature motif; other site 557760007855 Walker B; other site 557760007856 D-loop; other site 557760007857 H-loop/switch region; other site 557760007858 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 557760007859 TM-ABC transporter signature motif; other site 557760007860 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 557760007861 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 557760007862 TM-ABC transporter signature motif; other site 557760007863 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 557760007864 metal-binding site 557760007865 Hint domain; Region: Hint_2; pfam13403 557760007866 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 557760007867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760007868 DNA-binding site [nucleotide binding]; DNA binding site 557760007869 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 557760007870 UTRA domain; Region: UTRA; pfam07702 557760007871 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 557760007872 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 557760007873 active site 557760007874 imidazolonepropionase; Validated; Region: PRK09356 557760007875 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 557760007876 active site 557760007877 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 557760007878 active sites [active] 557760007879 tetramer interface [polypeptide binding]; other site 557760007880 urocanate hydratase; Provisional; Region: PRK05414 557760007881 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 557760007882 active site 557760007883 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 557760007884 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 557760007885 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 557760007886 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 557760007887 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 557760007888 Sporulation related domain; Region: SPOR; pfam05036 557760007889 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 557760007890 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 557760007891 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 557760007892 active site 557760007893 HIGH motif; other site 557760007894 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557760007895 KMSK motif region; other site 557760007896 tRNA binding surface [nucleotide binding]; other site 557760007897 DALR anticodon binding domain; Region: DALR_1; smart00836 557760007898 anticodon binding site; other site 557760007899 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 557760007900 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 557760007901 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 557760007902 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 557760007903 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 557760007904 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557760007905 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557760007906 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 557760007907 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 557760007908 dimer interface [polypeptide binding]; other site 557760007909 PYR/PP interface [polypeptide binding]; other site 557760007910 TPP binding site [chemical binding]; other site 557760007911 substrate binding site [chemical binding]; other site 557760007912 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 557760007913 TPP-binding site [chemical binding]; other site 557760007914 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 557760007915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760007916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760007917 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557760007918 putative effector binding pocket; other site 557760007919 dimerization interface [polypeptide binding]; other site 557760007920 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 557760007921 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 557760007922 dimerization interface [polypeptide binding]; other site 557760007923 ATP binding site [chemical binding]; other site 557760007924 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 557760007925 dimerization interface [polypeptide binding]; other site 557760007926 ATP binding site [chemical binding]; other site 557760007927 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 557760007928 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 557760007929 putative GSH binding site [chemical binding]; other site 557760007930 catalytic residues [active] 557760007931 Cell division protein ZapA; Region: ZapA; pfam05164 557760007932 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 557760007933 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 557760007934 TPP-binding site [chemical binding]; other site 557760007935 dimer interface [polypeptide binding]; other site 557760007936 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 557760007937 PYR/PP interface [polypeptide binding]; other site 557760007938 dimer interface [polypeptide binding]; other site 557760007939 TPP binding site [chemical binding]; other site 557760007940 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557760007941 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 557760007942 Protein of unknown function (DUF808); Region: DUF808; cl01002 557760007943 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 557760007944 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557760007945 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557760007946 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 557760007947 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 557760007948 active site 557760007949 (T/H)XGH motif; other site 557760007950 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_10; cd04623 557760007951 FOG: CBS domain [General function prediction only]; Region: COG0517 557760007952 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760007953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760007954 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557760007955 dimerization interface [polypeptide binding]; other site 557760007956 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557760007957 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 557760007958 tetrameric interface [polypeptide binding]; other site 557760007959 NAD binding site [chemical binding]; other site 557760007960 catalytic residues [active] 557760007961 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 557760007962 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 557760007963 ligand binding site [chemical binding]; other site 557760007964 flexible hinge region; other site 557760007965 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 557760007966 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 557760007967 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 557760007968 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557760007969 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557760007970 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 557760007971 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 557760007972 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760007973 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760007974 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557760007975 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 557760007976 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 557760007977 putative substrate translocation pore; other site 557760007978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760007979 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 557760007980 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 557760007981 Protein of unknown function; Region: DUF3971; pfam13116 557760007982 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 557760007983 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 557760007984 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 557760007985 catalytic triad [active] 557760007986 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 557760007987 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557760007988 Peptidase family M23; Region: Peptidase_M23; pfam01551 557760007989 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 557760007990 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 557760007991 peptide chain release factor 2; Validated; Region: prfB; PRK00578 557760007992 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557760007993 RF-1 domain; Region: RF-1; pfam00472 557760007994 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 557760007995 Transglycosylase; Region: Transgly; pfam00912 557760007996 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557760007997 AMIN domain; Region: AMIN; pfam11741 557760007998 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 557760007999 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 557760008000 active site 557760008001 metal binding site [ion binding]; metal-binding site 557760008002 aspartate aminotransferase; Provisional; Region: PRK05764 557760008003 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 557760008004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760008005 homodimer interface [polypeptide binding]; other site 557760008006 catalytic residue [active] 557760008007 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 557760008008 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 557760008009 catalytic residues [active] 557760008010 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557760008011 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 557760008012 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557760008013 Helix-turn-helix domain; Region: HTH_25; pfam13413 557760008014 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 557760008015 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 557760008016 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 557760008017 substrate-cofactor binding pocket; other site 557760008018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760008019 catalytic residue [active] 557760008020 hypothetical protein; Validated; Region: PRK09104 557760008021 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 557760008022 metal binding site [ion binding]; metal-binding site 557760008023 putative dimer interface [polypeptide binding]; other site 557760008024 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557760008025 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760008026 Coenzyme A binding pocket [chemical binding]; other site 557760008027 Pirin-related protein [General function prediction only]; Region: COG1741 557760008028 Pirin; Region: Pirin; pfam02678 557760008029 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557760008030 GMP synthase; Reviewed; Region: guaA; PRK00074 557760008031 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 557760008032 AMP/PPi binding site [chemical binding]; other site 557760008033 candidate oxyanion hole; other site 557760008034 catalytic triad [active] 557760008035 potential glutamine specificity residues [chemical binding]; other site 557760008036 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 557760008037 ATP Binding subdomain [chemical binding]; other site 557760008038 Ligand Binding sites [chemical binding]; other site 557760008039 Dimerization subdomain; other site 557760008040 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760008041 EamA-like transporter family; Region: EamA; pfam00892 557760008042 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 557760008043 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760008044 EamA-like transporter family; Region: EamA; pfam00892 557760008045 EamA-like transporter family; Region: EamA; pfam00892 557760008046 Homoserine O-succinyltransferase; Region: HTS; pfam04204 557760008047 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 557760008048 proposed active site lysine [active] 557760008049 conserved cys residue [active] 557760008050 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557760008051 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 557760008052 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760008053 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760008054 WHG domain; Region: WHG; pfam13305 557760008055 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760008056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760008057 Walker A/P-loop; other site 557760008058 ATP binding site [chemical binding]; other site 557760008059 Q-loop/lid; other site 557760008060 ABC transporter signature motif; other site 557760008061 Walker B; other site 557760008062 D-loop; other site 557760008063 H-loop/switch region; other site 557760008064 TOBE domain; Region: TOBE_2; pfam08402 557760008065 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557760008066 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 557760008067 dimer interface [polypeptide binding]; other site 557760008068 conserved gate region; other site 557760008069 putative PBP binding loops; other site 557760008070 ABC-ATPase subunit interface; other site 557760008071 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 557760008072 dimer interface [polypeptide binding]; other site 557760008073 conserved gate region; other site 557760008074 putative PBP binding loops; other site 557760008075 ABC-ATPase subunit interface; other site 557760008076 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 557760008077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760008078 DNA-binding site [nucleotide binding]; DNA binding site 557760008079 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 557760008080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760008081 homodimer interface [polypeptide binding]; other site 557760008082 catalytic residue [active] 557760008083 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 557760008084 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 557760008085 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 557760008086 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 557760008087 23S rRNA interface [nucleotide binding]; other site 557760008088 L3 interface [polypeptide binding]; other site 557760008089 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 557760008090 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 557760008091 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 557760008092 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 557760008093 extended (e) SDRs; Region: SDR_e; cd08946 557760008094 NAD(P) binding site [chemical binding]; other site 557760008095 active site 557760008096 substrate binding site [chemical binding]; other site 557760008097 short chain dehydrogenase; Provisional; Region: PRK07109 557760008098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760008099 NAD(P) binding site [chemical binding]; other site 557760008100 active site 557760008101 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 557760008102 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 557760008103 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 557760008104 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557760008105 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760008106 putative active site [active] 557760008107 heme pocket [chemical binding]; other site 557760008108 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760008109 putative active site [active] 557760008110 heme pocket [chemical binding]; other site 557760008111 PAS domain S-box; Region: sensory_box; TIGR00229 557760008112 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760008113 putative active site [active] 557760008114 heme pocket [chemical binding]; other site 557760008115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760008116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760008117 metal binding site [ion binding]; metal-binding site 557760008118 active site 557760008119 I-site; other site 557760008120 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 557760008121 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 557760008122 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760008123 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557760008124 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 557760008125 DNA binding residues [nucleotide binding] 557760008126 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557760008127 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 557760008128 FHIPEP family; Region: FHIPEP; pfam00771 557760008129 LPP20 lipoprotein; Region: LPP20; pfam02169 557760008130 SAF-like; Region: SAF_2; pfam13144 557760008131 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 557760008132 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 557760008133 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 557760008134 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557760008135 Sel1-like repeats; Region: SEL1; smart00671 557760008136 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 557760008137 Flagellar protein FliS; Region: FliS; cl00654 557760008138 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 557760008139 putative binding surface; other site 557760008140 active site 557760008141 CheW-like domain; Region: CheW; pfam01584 557760008142 Response regulator receiver domain; Region: Response_reg; pfam00072 557760008143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008144 active site 557760008145 phosphorylation site [posttranslational modification] 557760008146 intermolecular recognition site; other site 557760008147 dimerization interface [polypeptide binding]; other site 557760008148 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557760008149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760008150 dimer interface [polypeptide binding]; other site 557760008151 putative CheW interface [polypeptide binding]; other site 557760008152 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557760008153 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760008154 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 557760008155 Magnesium ion binding site [ion binding]; other site 557760008156 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 557760008157 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 557760008158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008159 active site 557760008160 phosphorylation site [posttranslational modification] 557760008161 intermolecular recognition site; other site 557760008162 dimerization interface [polypeptide binding]; other site 557760008163 CheB methylesterase; Region: CheB_methylest; pfam01339 557760008164 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557760008165 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 557760008166 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 557760008167 S-adenosylmethionine binding site [chemical binding]; other site 557760008168 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 557760008169 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557760008170 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760008171 ATP binding site [chemical binding]; other site 557760008172 Mg2+ binding site [ion binding]; other site 557760008173 G-X-G motif; other site 557760008174 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 557760008175 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 557760008176 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557760008177 Walker A motif; other site 557760008178 ATP binding site [chemical binding]; other site 557760008179 Walker B motif; other site 557760008180 arginine finger; other site 557760008181 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 557760008182 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 557760008183 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 557760008184 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 557760008185 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 557760008186 FliG C-terminal domain; Region: FliG_C; pfam01706 557760008187 Flagellar assembly protein FliH; Region: FliH; pfam02108 557760008188 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 557760008189 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557760008190 Walker A motif; other site 557760008191 ATP binding site [chemical binding]; other site 557760008192 Walker B motif; other site 557760008193 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 557760008194 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 557760008195 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 557760008196 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 557760008197 flagellar motor switch protein FliN; Region: fliN; TIGR02480 557760008198 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 557760008199 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 557760008200 flagellar biosynthetic protein FliQ; Region: fliQ; TIGR01402 557760008201 flagellar biosynthetic protein FliR; Region: fliR; TIGR01400 557760008202 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 557760008203 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 557760008204 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 557760008205 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 557760008206 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 557760008207 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 557760008208 flagellin; Provisional; Region: PRK12806 557760008209 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 557760008210 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 557760008211 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 557760008212 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 557760008213 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 557760008214 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 557760008215 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 557760008216 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557760008217 Walker A motif; other site 557760008218 ATP binding site [chemical binding]; other site 557760008219 Walker B motif; other site 557760008220 arginine finger; other site 557760008221 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 557760008222 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 557760008223 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 557760008224 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557760008225 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760008226 Rod binding protein; Region: Rod-binding; pfam10135 557760008227 Flagellar P-ring protein; Region: FlgI; pfam02119 557760008228 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 557760008229 Flagellar L-ring protein; Region: FlgH; pfam02107 557760008230 flagellar basal-body rod protein FlgG, Gram-negative bacteria; Region: flgG_G_neg; TIGR02488 557760008231 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557760008232 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760008233 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 557760008234 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760008235 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 557760008236 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 557760008237 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760008238 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 557760008239 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 557760008240 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 557760008241 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 557760008242 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557760008243 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 557760008244 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 557760008245 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557760008246 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760008247 putative active site [active] 557760008248 heme pocket [chemical binding]; other site 557760008249 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760008250 dimer interface [polypeptide binding]; other site 557760008251 phosphorylation site [posttranslational modification] 557760008252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760008253 ATP binding site [chemical binding]; other site 557760008254 Mg2+ binding site [ion binding]; other site 557760008255 G-X-G motif; other site 557760008256 Response regulator receiver domain; Region: Response_reg; pfam00072 557760008257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008258 active site 557760008259 phosphorylation site [posttranslational modification] 557760008260 intermolecular recognition site; other site 557760008261 dimerization interface [polypeptide binding]; other site 557760008262 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 557760008263 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760008264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008265 active site 557760008266 phosphorylation site [posttranslational modification] 557760008267 intermolecular recognition site; other site 557760008268 dimerization interface [polypeptide binding]; other site 557760008269 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 557760008270 DNA binding residues [nucleotide binding] 557760008271 dimerization interface [polypeptide binding]; other site 557760008272 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 557760008273 dimerization interface [polypeptide binding]; other site 557760008274 metal binding site [ion binding]; metal-binding site 557760008275 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557760008276 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 557760008277 motif II; other site 557760008278 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 557760008279 MarR family; Region: MarR_2; pfam12802 557760008280 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 557760008281 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557760008282 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760008283 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 557760008284 dimer interface [polypeptide binding]; other site 557760008285 conserved gate region; other site 557760008286 putative PBP binding loops; other site 557760008287 ABC-ATPase subunit interface; other site 557760008288 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760008289 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 557760008290 dimer interface [polypeptide binding]; other site 557760008291 conserved gate region; other site 557760008292 putative PBP binding loops; other site 557760008293 ABC-ATPase subunit interface; other site 557760008294 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 557760008295 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760008296 Walker A/P-loop; other site 557760008297 ATP binding site [chemical binding]; other site 557760008298 Q-loop/lid; other site 557760008299 ABC transporter signature motif; other site 557760008300 Walker B; other site 557760008301 D-loop; other site 557760008302 H-loop/switch region; other site 557760008303 TOBE domain; Region: TOBE_2; pfam08402 557760008304 sorbitol dehydrogenase; Provisional; Region: PRK07067 557760008305 Sorbitol dehydrogenase (SDH), classical (c) SDR; Region: SDH_SDR_c; cd05363 557760008306 putative NAD(P) binding site [chemical binding]; other site 557760008307 active site 557760008308 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 557760008309 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 557760008310 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 557760008311 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760008312 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760008313 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 557760008314 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760008315 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 557760008316 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 557760008317 NADH dehydrogenase subunit B; Validated; Region: PRK06411 557760008318 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 557760008319 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 557760008320 NADH dehydrogenase subunit D; Validated; Region: PRK06075 557760008321 NADH dehydrogenase subunit E; Validated; Region: PRK07539 557760008322 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 557760008323 putative dimer interface [polypeptide binding]; other site 557760008324 [2Fe-2S] cluster binding site [ion binding]; other site 557760008325 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 557760008326 SLBB domain; Region: SLBB; pfam10531 557760008327 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 557760008328 NADH dehydrogenase subunit G; Validated; Region: PRK08166 557760008329 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 557760008330 catalytic loop [active] 557760008331 iron binding site [ion binding]; other site 557760008332 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 557760008333 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 557760008334 molybdopterin cofactor binding site; other site 557760008335 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 557760008336 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 557760008337 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 557760008338 4Fe-4S binding domain; Region: Fer4; cl02805 557760008339 4Fe-4S binding domain; Region: Fer4; pfam00037 557760008340 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760008341 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 557760008342 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760008343 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 557760008344 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 557760008345 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 557760008346 putative active site [active] 557760008347 catalytic site [active] 557760008348 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 557760008349 putative active site [active] 557760008350 catalytic site [active] 557760008351 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 557760008352 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557760008353 Cytochrome c; Region: Cytochrom_C; cl11414 557760008354 Cytochrome c; Region: Cytochrom_C; cl11414 557760008355 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 557760008356 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557760008357 D-pathway; other site 557760008358 Putative ubiquinol binding site [chemical binding]; other site 557760008359 Low-spin heme (heme b) binding site [chemical binding]; other site 557760008360 Putative water exit pathway; other site 557760008361 Binuclear center (heme o3/CuB) [ion binding]; other site 557760008362 K-pathway; other site 557760008363 Putative proton exit pathway; other site 557760008364 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 557760008365 Subunit I/III interface [polypeptide binding]; other site 557760008366 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 557760008367 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557760008368 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 557760008369 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557760008370 active site 557760008371 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557760008372 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557760008373 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760008374 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 557760008375 DNA binding residues [nucleotide binding] 557760008376 transcriptional regulator TraR; Provisional; Region: PRK13870 557760008377 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557760008378 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 557760008379 DNA binding residues [nucleotide binding] 557760008380 dimerization interface [polypeptide binding]; other site 557760008381 Autoinducer synthetase; Region: Autoind_synth; cl17404 557760008382 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 557760008383 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 557760008384 glucosyltransferase MdoH; Provisional; Region: PRK05454 557760008385 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557760008386 active site 557760008387 OpgC protein; Region: OpgC_C; pfam10129 557760008388 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 557760008389 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 557760008390 Walker A/P-loop; other site 557760008391 ATP binding site [chemical binding]; other site 557760008392 Q-loop/lid; other site 557760008393 ABC transporter signature motif; other site 557760008394 Walker B; other site 557760008395 D-loop; other site 557760008396 H-loop/switch region; other site 557760008397 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760008398 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 557760008399 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 557760008400 dimer interface [polypeptide binding]; other site 557760008401 conserved gate region; other site 557760008402 ABC-ATPase subunit interface; other site 557760008403 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557760008404 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557760008405 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 557760008406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760008407 Transposase; Region: HTH_Tnp_1; cl17663 557760008408 putative transposase OrfB; Reviewed; Region: PHA02517 557760008409 HTH-like domain; Region: HTH_21; pfam13276 557760008410 Integrase core domain; Region: rve; pfam00665 557760008411 Integrase core domain; Region: rve_3; pfam13683 557760008412 putative transposase OrfB; Reviewed; Region: PHA02517 557760008413 HTH-like domain; Region: HTH_21; pfam13276 557760008414 Integrase core domain; Region: rve; pfam00665 557760008415 Integrase core domain; Region: rve_3; pfam13683 557760008416 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760008417 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 557760008418 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557760008419 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760008420 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557760008421 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760008422 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557760008423 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557760008424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760008425 Transposase; Region: HTH_Tnp_1; pfam01527 557760008426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760008427 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 557760008428 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 557760008429 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 557760008430 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 557760008431 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 557760008432 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 557760008433 trigger factor; Provisional; Region: tig; PRK01490 557760008434 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557760008435 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 557760008436 Hint domain; Region: Hint_2; pfam13403 557760008437 potential frameshift: common BLAST hit: gi|99080865|ref|YP_613019.1| YjeF-related protein-like 557760008438 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 557760008439 putative ATP binding site [chemical binding]; other site 557760008440 putative substrate binding site [chemical binding]; other site 557760008441 Uncharacterized conserved protein [Function unknown]; Region: COG0062 557760008442 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 557760008443 Nitrogen regulatory protein P-II; Region: P-II; smart00938 557760008444 glutamine synthetase; Provisional; Region: glnA; PRK09469 557760008445 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557760008446 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557760008447 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557760008448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008449 active site 557760008450 phosphorylation site [posttranslational modification] 557760008451 intermolecular recognition site; other site 557760008452 dimerization interface [polypeptide binding]; other site 557760008453 Histidine kinase; Region: HisKA_2; pfam07568 557760008454 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 557760008455 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760008456 ATP binding site [chemical binding]; other site 557760008457 Mg2+ binding site [ion binding]; other site 557760008458 G-X-G motif; other site 557760008459 Response regulator receiver domain; Region: Response_reg; pfam00072 557760008460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008461 active site 557760008462 phosphorylation site [posttranslational modification] 557760008463 intermolecular recognition site; other site 557760008464 dimerization interface [polypeptide binding]; other site 557760008465 CHASE3 domain; Region: CHASE3; pfam05227 557760008466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760008467 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 557760008468 dimer interface [polypeptide binding]; other site 557760008469 phosphorylation site [posttranslational modification] 557760008470 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760008471 ATP binding site [chemical binding]; other site 557760008472 Mg2+ binding site [ion binding]; other site 557760008473 G-X-G motif; other site 557760008474 MoxR-like ATPases [General function prediction only]; Region: COG0714 557760008475 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 557760008476 Walker A motif; other site 557760008477 ATP binding site [chemical binding]; other site 557760008478 Walker B motif; other site 557760008479 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 557760008480 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 557760008481 metal ion-dependent adhesion site (MIDAS); other site 557760008482 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 557760008483 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557760008484 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 557760008485 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760008486 substrate binding site [chemical binding]; other site 557760008487 oxyanion hole (OAH) forming residues; other site 557760008488 trimer interface [polypeptide binding]; other site 557760008489 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 557760008490 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557760008491 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760008492 active site 557760008493 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 557760008494 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 557760008495 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 557760008496 active site 557760008497 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 557760008498 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 557760008499 NAD binding site [chemical binding]; other site 557760008500 homodimer interface [polypeptide binding]; other site 557760008501 active site 557760008502 substrate binding site [chemical binding]; other site 557760008503 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 557760008504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760008505 NAD binding site [chemical binding]; other site 557760008506 putative substrate binding site 2 [chemical binding]; other site 557760008507 putative substrate binding site 1 [chemical binding]; other site 557760008508 active site 557760008509 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557760008510 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557760008511 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557760008512 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 557760008513 dimer interface [polypeptide binding]; other site 557760008514 conserved gate region; other site 557760008515 putative PBP binding loops; other site 557760008516 ABC-ATPase subunit interface; other site 557760008517 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 557760008518 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 557760008519 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 557760008520 Putative phosphatase (DUF442); Region: DUF442; cl17385 557760008521 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 557760008522 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 557760008523 Na binding site [ion binding]; other site 557760008524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760008525 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760008526 dimer interface [polypeptide binding]; other site 557760008527 phosphorylation site [posttranslational modification] 557760008528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760008529 ATP binding site [chemical binding]; other site 557760008530 Mg2+ binding site [ion binding]; other site 557760008531 G-X-G motif; other site 557760008532 Response regulator receiver domain; Region: Response_reg; pfam00072 557760008533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760008534 active site 557760008535 phosphorylation site [posttranslational modification] 557760008536 intermolecular recognition site; other site 557760008537 dimerization interface [polypeptide binding]; other site 557760008538 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557760008539 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 557760008540 non-specific DNA binding site [nucleotide binding]; other site 557760008541 salt bridge; other site 557760008542 sequence-specific DNA binding site [nucleotide binding]; other site 557760008543 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 557760008544 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 557760008545 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557760008546 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760008547 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 557760008548 NAD binding site [chemical binding]; other site 557760008549 homotetramer interface [polypeptide binding]; other site 557760008550 homodimer interface [polypeptide binding]; other site 557760008551 active site 557760008552 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 557760008553 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557760008554 putative ligand binding site [chemical binding]; other site 557760008555 NAD binding site [chemical binding]; other site 557760008556 catalytic site [active] 557760008557 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 557760008558 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557760008559 FAD binding domain; Region: FAD_binding_4; pfam01565 557760008560 NMT1/THI5 like; Region: NMT1; pfam09084 557760008561 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760008562 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 557760008563 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760008564 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 557760008565 dimer interface [polypeptide binding]; other site 557760008566 conserved gate region; other site 557760008567 putative PBP binding loops; other site 557760008568 ABC-ATPase subunit interface; other site 557760008569 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760008570 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760008571 Walker A/P-loop; other site 557760008572 ATP binding site [chemical binding]; other site 557760008573 Q-loop/lid; other site 557760008574 ABC transporter signature motif; other site 557760008575 Walker B; other site 557760008576 D-loop; other site 557760008577 H-loop/switch region; other site 557760008578 phenylhydantoinase; Validated; Region: PRK08323 557760008579 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 557760008580 tetramer interface [polypeptide binding]; other site 557760008581 active site 557760008582 allantoate amidohydrolase; Reviewed; Region: PRK12893 557760008583 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 557760008584 active site 557760008585 metal binding site [ion binding]; metal-binding site 557760008586 dimer interface [polypeptide binding]; other site 557760008587 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 557760008588 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760008589 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557760008590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760008591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760008592 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557760008593 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 557760008594 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 557760008595 homodimer interface [polypeptide binding]; other site 557760008596 active site 557760008597 FMN binding site [chemical binding]; other site 557760008598 substrate binding site [chemical binding]; other site 557760008599 4Fe-4S binding domain; Region: Fer4_6; pfam12837 557760008600 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557760008601 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557760008602 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 557760008603 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 557760008604 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760008605 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760008606 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 557760008607 carboxyltransferase (CT) interaction site; other site 557760008608 biotinylation site [posttranslational modification]; other site 557760008609 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557760008610 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557760008611 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557760008612 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557760008613 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 557760008614 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 557760008615 mce related protein; Region: MCE; pfam02470 557760008616 NADH dehydrogenase; Validated; Region: PRK08183 557760008617 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 557760008618 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 557760008619 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 557760008620 Walker A motif; other site 557760008621 ATP binding site [chemical binding]; other site 557760008622 Walker B motif; other site 557760008623 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557760008624 Clp protease; Region: CLP_protease; pfam00574 557760008625 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557760008626 oligomer interface [polypeptide binding]; other site 557760008627 active site residues [active] 557760008628 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 557760008629 hypothetical protein; Provisional; Region: PRK11622 557760008630 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 557760008631 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 557760008632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760008633 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 557760008634 Walker A/P-loop; other site 557760008635 ATP binding site [chemical binding]; other site 557760008636 Q-loop/lid; other site 557760008637 ABC transporter signature motif; other site 557760008638 Walker B; other site 557760008639 D-loop; other site 557760008640 H-loop/switch region; other site 557760008641 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 557760008642 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 557760008643 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557760008644 HAMP domain; Region: HAMP; pfam00672 557760008645 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760008646 ATP binding site [chemical binding]; other site 557760008647 Mg2+ binding site [ion binding]; other site 557760008648 G-X-G motif; other site 557760008649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557760008650 potential frameshift: common BLAST hit: gi|153010059|ref|YP_001371274.1| transposase IS3/IS911 family protein 557760008651 Integrase core domain; Region: rve_3; pfam13683 557760008652 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 557760008653 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 557760008654 active site 557760008655 Phospholipid methyltransferase; Region: PEMT; cl17370 557760008656 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557760008657 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 557760008658 putative substrate translocation pore; other site 557760008659 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 557760008660 active site 557760008661 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557760008662 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 557760008663 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 557760008664 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760008665 ligand binding site [chemical binding]; other site 557760008666 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557760008667 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 557760008668 heme-binding site [chemical binding]; other site 557760008669 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557760008670 dimer interface [polypeptide binding]; other site 557760008671 putative CheW interface [polypeptide binding]; other site 557760008672 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 557760008673 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 557760008674 FeS/SAM binding site; other site 557760008675 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 557760008676 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760008677 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760008678 acetylornithine deacetylase; Provisional; Region: PRK07522 557760008679 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 557760008680 metal binding site [ion binding]; metal-binding site 557760008681 putative dimer interface [polypeptide binding]; other site 557760008682 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 557760008683 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 557760008684 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 557760008685 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 557760008686 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 557760008687 ligand binding site [chemical binding]; other site 557760008688 homodimer interface [polypeptide binding]; other site 557760008689 NAD(P) binding site [chemical binding]; other site 557760008690 trimer interface B [polypeptide binding]; other site 557760008691 trimer interface A [polypeptide binding]; other site 557760008692 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 557760008693 Phospholipid methyltransferase; Region: PEMT; cl17370 557760008694 kynureninase; Region: kynureninase; TIGR01814 557760008695 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 557760008696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760008697 catalytic residue [active] 557760008698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557760008699 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760008700 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 557760008701 Peptidase C26; Region: Peptidase_C26; pfam07722 557760008702 catalytic triad [active] 557760008703 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 557760008704 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760008705 catalytic residue [active] 557760008706 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557760008707 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760008708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760008709 Walker A/P-loop; other site 557760008710 ATP binding site [chemical binding]; other site 557760008711 Q-loop/lid; other site 557760008712 ABC transporter signature motif; other site 557760008713 Walker B; other site 557760008714 D-loop; other site 557760008715 H-loop/switch region; other site 557760008716 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 557760008717 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 557760008718 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557760008719 elongation factor P; Validated; Region: PRK00529 557760008720 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557760008721 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 557760008722 RNA binding site [nucleotide binding]; other site 557760008723 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 557760008724 RNA binding site [nucleotide binding]; other site 557760008725 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557760008726 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 557760008727 Methyltransferase domain; Region: Methyltransf_18; pfam12847 557760008728 S-adenosylmethionine binding site [chemical binding]; other site 557760008729 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760008730 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760008731 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 557760008732 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 557760008733 TPP-binding site; other site 557760008734 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 557760008735 PYR/PP interface [polypeptide binding]; other site 557760008736 dimer interface [polypeptide binding]; other site 557760008737 TPP binding site [chemical binding]; other site 557760008738 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557760008739 Intrinsic membrane protein PufX; Region: RhodobacterPufX; pfam11511 557760008740 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 557760008741 subunit H interface; other site 557760008742 subunit L interface; other site 557760008743 bacteriopheophytin binding site; other site 557760008744 carotenoid binding site; other site 557760008745 bacteriochlorophyll binding site; other site 557760008746 cytochrome C interface; other site 557760008747 quinone binding site; other site 557760008748 Fe binding site [ion binding]; other site 557760008749 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 557760008750 subunit M interface; other site 557760008751 subunit H interface; other site 557760008752 quinone binding site; other site 557760008753 bacteriopheophytin binding site; other site 557760008754 bacteriochlorophyll binding site; other site 557760008755 cytochrome C subunit interface; other site 557760008756 Fe binding site [ion binding]; other site 557760008757 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 557760008758 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 557760008759 PufQ cytochrome subunit; Region: PufQ; pfam05398 557760008760 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 557760008761 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 557760008762 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 557760008763 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 557760008764 Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L...; Region: BchX; cd02033 557760008765 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 557760008766 P-loop; other site 557760008767 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 557760008768 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 557760008769 putative NAD(P) binding site [chemical binding]; other site 557760008770 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 557760008771 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 557760008772 S-adenosylmethionine binding site [chemical binding]; other site 557760008773 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557760008774 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557760008775 substrate binding pocket [chemical binding]; other site 557760008776 chain length determination region; other site 557760008777 substrate-Mg2+ binding site; other site 557760008778 catalytic residues [active] 557760008779 aspartate-rich region 1; other site 557760008780 active site lid residues [active] 557760008781 aspartate-rich region 2; other site 557760008782 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 557760008783 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760008784 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 557760008785 TspO/MBR family; Region: TspO_MBR; pfam03073 557760008786 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 557760008787 active site lid residues [active] 557760008788 substrate binding pocket [chemical binding]; other site 557760008789 catalytic residues [active] 557760008790 substrate-Mg2+ binding site; other site 557760008791 aspartate-rich region 1; other site 557760008792 aspartate-rich region 2; other site 557760008793 phytoene desaturase; Region: crtI_fam; TIGR02734 557760008794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760008795 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 557760008796 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 557760008797 Walker A motif; other site 557760008798 ATP binding site [chemical binding]; other site 557760008799 Walker B motif; other site 557760008800 arginine finger; other site 557760008801 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 557760008802 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 557760008803 metal ion-dependent adhesion site (MIDAS); other site 557760008804 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 557760008805 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 557760008806 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 557760008807 active site 557760008808 metal binding site [ion binding]; metal-binding site 557760008809 nudix motif; other site 557760008810 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 557760008811 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760008812 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 557760008813 putative substrate translocation pore; other site 557760008814 PUCC protein; Region: PUCC; pfam03209 557760008815 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 557760008816 UbiA prenyltransferase family; Region: UbiA; pfam01040 557760008817 bacteriochlorophyll 4-vinyl reductase; Region: BchJ; TIGR02019 557760008818 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 557760008819 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 557760008820 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 557760008821 FeS/SAM binding site; other site 557760008822 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 557760008823 PAS domain; Region: PAS; smart00091 557760008824 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760008825 putative active site [active] 557760008826 heme pocket [chemical binding]; other site 557760008827 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760008828 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 557760008829 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 557760008830 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 557760008831 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 557760008832 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 557760008833 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 557760008834 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 557760008835 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 557760008836 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557760008837 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 557760008838 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 557760008839 P-loop; other site 557760008840 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 557760008841 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 557760008842 S-adenosylmethionine binding site [chemical binding]; other site 557760008843 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 557760008844 PUCC protein; Region: PUCC; pfam03209 557760008845 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 557760008846 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cd00226 557760008847 subunit C interaction residues; other site 557760008848 subunit M interaction residues [polypeptide binding]; other site 557760008849 subunit L interaction residues [polypeptide binding]; other site 557760008850 putative proton transfer pathway, P1; other site 557760008851 putative proton transfer pathway, P2; other site 557760008852 Bacterial PH domain; Region: DUF304; pfam03703 557760008853 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 557760008854 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 557760008855 diiron binding motif [ion binding]; other site 557760008856 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 557760008857 Cytochrome c; Region: Cytochrom_C; cl11414 557760008858 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 557760008859 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760008860 Walker A/P-loop; other site 557760008861 ATP binding site [chemical binding]; other site 557760008862 Q-loop/lid; other site 557760008863 ABC transporter signature motif; other site 557760008864 Walker B; other site 557760008865 D-loop; other site 557760008866 H-loop/switch region; other site 557760008867 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 557760008868 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760008869 Walker A/P-loop; other site 557760008870 ATP binding site [chemical binding]; other site 557760008871 Q-loop/lid; other site 557760008872 ABC transporter signature motif; other site 557760008873 Walker B; other site 557760008874 D-loop; other site 557760008875 H-loop/switch region; other site 557760008876 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 557760008877 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 557760008878 TM-ABC transporter signature motif; other site 557760008879 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 557760008880 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760008881 TM-ABC transporter signature motif; other site 557760008882 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760008883 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 557760008884 putative ligand binding site [chemical binding]; other site 557760008885 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760008886 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 557760008887 UreF; Region: UreF; pfam01730 557760008888 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 557760008889 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 557760008890 dimer interface [polypeptide binding]; other site 557760008891 catalytic residues [active] 557760008892 urease subunit alpha; Reviewed; Region: ureC; PRK13207 557760008893 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 557760008894 subunit interactions [polypeptide binding]; other site 557760008895 active site 557760008896 flap region; other site 557760008897 Cytochrome c; Region: Cytochrom_C; pfam00034 557760008898 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 557760008899 gamma-beta subunit interface [polypeptide binding]; other site 557760008900 alpha-beta subunit interface [polypeptide binding]; other site 557760008901 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 557760008902 alpha-gamma subunit interface [polypeptide binding]; other site 557760008903 beta-gamma subunit interface [polypeptide binding]; other site 557760008904 UreD urease accessory protein; Region: UreD; pfam01774 557760008905 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 557760008906 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 557760008907 active site 557760008908 ATP binding site [chemical binding]; other site 557760008909 substrate binding site [chemical binding]; other site 557760008910 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 557760008911 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 557760008912 inhibitor-cofactor binding pocket; inhibition site 557760008913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760008914 catalytic residue [active] 557760008915 PUCC protein; Region: PUCC; pfam03209 557760008916 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760008917 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 557760008918 DNA binding residues [nucleotide binding] 557760008919 dimerization interface [polypeptide binding]; other site 557760008920 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 557760008921 NnrU protein; Region: NnrU; pfam07298 557760008922 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 557760008923 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 557760008924 metal ion-dependent adhesion site (MIDAS); other site 557760008925 MoxR-like ATPases [General function prediction only]; Region: COG0714 557760008926 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 557760008927 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 557760008928 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557760008929 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 557760008930 Putative water exit pathway; other site 557760008931 Binuclear center (active site) [active] 557760008932 K-pathway; other site 557760008933 Putative proton exit pathway; other site 557760008934 Cytochrome c; Region: Cytochrom_C; pfam00034 557760008935 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 557760008936 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 557760008937 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760008938 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 557760008939 ligand binding site [chemical binding]; other site 557760008940 flexible hinge region; other site 557760008941 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 557760008942 putative switch regulator; other site 557760008943 non-specific DNA interactions [nucleotide binding]; other site 557760008944 DNA binding site [nucleotide binding] 557760008945 sequence specific DNA binding site [nucleotide binding]; other site 557760008946 putative cAMP binding site [chemical binding]; other site 557760008947 NnrS protein; Region: NnrS; pfam05940 557760008948 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 557760008949 GAF domain; Region: GAF; pfam01590 557760008950 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760008951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760008952 metal binding site [ion binding]; metal-binding site 557760008953 active site 557760008954 I-site; other site 557760008955 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 557760008956 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 557760008957 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 557760008958 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 557760008959 DXD motif; other site 557760008960 PilZ domain; Region: PilZ; pfam07238 557760008961 PAS fold; Region: PAS_4; pfam08448 557760008962 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760008963 metal binding site [ion binding]; metal-binding site 557760008964 active site 557760008965 I-site; other site 557760008966 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 557760008967 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 557760008968 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557760008969 active site 557760008970 metal binding site [ion binding]; metal-binding site 557760008971 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 557760008972 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 557760008973 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 557760008974 S-adenosylmethionine binding site [chemical binding]; other site 557760008975 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 557760008976 cytosine deaminase; Validated; Region: PRK07572 557760008977 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 557760008978 active site 557760008979 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760008980 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 557760008981 TM-ABC transporter signature motif; other site 557760008982 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760008983 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 557760008984 TM-ABC transporter signature motif; other site 557760008985 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 557760008986 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760008987 Walker A/P-loop; other site 557760008988 ATP binding site [chemical binding]; other site 557760008989 Q-loop/lid; other site 557760008990 ABC transporter signature motif; other site 557760008991 Walker B; other site 557760008992 D-loop; other site 557760008993 H-loop/switch region; other site 557760008994 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760008995 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 557760008996 putative ligand binding site [chemical binding]; other site 557760008997 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 557760008998 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760008999 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557760009000 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 557760009001 putative PBP binding loops; other site 557760009002 dimer interface [polypeptide binding]; other site 557760009003 ABC-ATPase subunit interface; other site 557760009004 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557760009005 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 557760009006 dimer interface [polypeptide binding]; other site 557760009007 conserved gate region; other site 557760009008 putative PBP binding loops; other site 557760009009 ABC-ATPase subunit interface; other site 557760009010 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557760009011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760009012 Walker A/P-loop; other site 557760009013 ATP binding site [chemical binding]; other site 557760009014 Q-loop/lid; other site 557760009015 ABC transporter signature motif; other site 557760009016 Walker B; other site 557760009017 D-loop; other site 557760009018 H-loop/switch region; other site 557760009019 TOBE domain; Region: TOBE_2; pfam08402 557760009020 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 557760009021 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557760009022 active site 557760009023 catalytic tetrad [active] 557760009024 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557760009025 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 557760009026 catalytic loop [active] 557760009027 iron binding site [ion binding]; other site 557760009028 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 557760009029 generic binding surface I; other site 557760009030 generic binding surface II; other site 557760009031 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760009032 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 557760009033 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557760009034 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 557760009035 protein binding site [polypeptide binding]; other site 557760009036 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 557760009037 protein binding site [polypeptide binding]; other site 557760009038 HflC protein; Region: hflC; TIGR01932 557760009039 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 557760009040 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 557760009041 HflK protein; Region: hflK; TIGR01933 557760009042 glutathione reductase; Validated; Region: PRK06116 557760009043 lycopene cyclase; Region: lycopene_cycl; TIGR01789 557760009044 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760009045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760009046 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557760009047 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 557760009048 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557760009049 active site 557760009050 dimer interface [polypeptide binding]; other site 557760009051 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 557760009052 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 557760009053 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 557760009054 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760009055 EamA-like transporter family; Region: EamA; pfam00892 557760009056 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 557760009057 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 557760009058 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 557760009059 GDP-binding site [chemical binding]; other site 557760009060 ACT binding site; other site 557760009061 IMP binding site; other site 557760009062 Preprotein translocase SecG subunit; Region: SecG; pfam03840 557760009063 CTP synthetase; Validated; Region: pyrG; PRK05380 557760009064 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 557760009065 Catalytic site [active] 557760009066 active site 557760009067 UTP binding site [chemical binding]; other site 557760009068 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 557760009069 active site 557760009070 putative oxyanion hole; other site 557760009071 catalytic triad [active] 557760009072 Protein of unknown function (DUF519); Region: DUF519; pfam04378 557760009073 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 557760009074 putative metal binding site [ion binding]; other site 557760009075 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 557760009076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760009077 Walker A/P-loop; other site 557760009078 ATP binding site [chemical binding]; other site 557760009079 Q-loop/lid; other site 557760009080 ABC transporter signature motif; other site 557760009081 Walker B; other site 557760009082 D-loop; other site 557760009083 H-loop/switch region; other site 557760009084 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557760009085 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 557760009086 substrate binding pocket [chemical binding]; other site 557760009087 membrane-bound complex binding site; other site 557760009088 hinge residues; other site 557760009089 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557760009090 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 557760009091 ABC-ATPase subunit interface; other site 557760009092 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 557760009093 dimer interface [polypeptide binding]; other site 557760009094 conserved gate region; other site 557760009095 putative PBP binding loops; other site 557760009096 ABC-ATPase subunit interface; other site 557760009097 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557760009098 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557760009099 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557760009100 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557760009101 catalytic triad [active] 557760009102 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557760009103 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557760009104 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760009105 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760009106 aminotransferase; Provisional; Region: PRK06105 557760009107 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 557760009108 inhibitor-cofactor binding pocket; inhibition site 557760009109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760009110 catalytic residue [active] 557760009111 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 557760009112 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 557760009113 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 557760009114 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 557760009115 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 557760009116 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 557760009117 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 557760009118 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557760009119 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 557760009120 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 557760009121 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557760009122 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 557760009123 active site 557760009124 dimer interface [polypeptide binding]; other site 557760009125 motif 1; other site 557760009126 motif 2; other site 557760009127 motif 3; other site 557760009128 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 557760009129 anticodon binding site; other site 557760009130 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760009131 DNA-binding site [nucleotide binding]; DNA binding site 557760009132 RNA-binding motif; other site 557760009133 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557760009134 ArsC family; Region: ArsC; pfam03960 557760009135 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 557760009136 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 557760009137 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 557760009138 folate binding site [chemical binding]; other site 557760009139 NADP+ binding site [chemical binding]; other site 557760009140 thymidylate synthase; Reviewed; Region: thyA; PRK01827 557760009141 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 557760009142 dimerization interface [polypeptide binding]; other site 557760009143 active site 557760009144 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557760009145 dimer interface [polypeptide binding]; other site 557760009146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760009147 active site 557760009148 metal binding site [ion binding]; metal-binding site 557760009149 glutathione binding site [chemical binding]; other site 557760009150 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 557760009151 catalytic motif [active] 557760009152 Zn binding site [ion binding]; other site 557760009153 RibD C-terminal domain; Region: RibD_C; cl17279 557760009154 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 557760009155 ATP cone domain; Region: ATP-cone; pfam03477 557760009156 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 557760009157 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557760009158 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 557760009159 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 557760009160 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760009161 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557760009162 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 557760009163 DNA binding residues [nucleotide binding] 557760009164 DNA primase; Validated; Region: dnaG; PRK05667 557760009165 CHC2 zinc finger; Region: zf-CHC2; pfam01807 557760009166 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557760009167 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 557760009168 active site 557760009169 metal binding site [ion binding]; metal-binding site 557760009170 interdomain interaction site; other site 557760009171 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 557760009172 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 557760009173 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 557760009174 NAD(P) binding site [chemical binding]; other site 557760009175 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 557760009176 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 557760009177 metal ion-dependent adhesion site (MIDAS); other site 557760009178 TadE-like protein; Region: TadE; pfam07811 557760009179 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 557760009180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760009181 homoserine dehydrogenase; Provisional; Region: PRK06349 557760009182 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 557760009183 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 557760009184 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 557760009185 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 557760009186 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 557760009187 putative active site [active] 557760009188 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 557760009189 DHH family; Region: DHH; pfam01368 557760009190 DHHA1 domain; Region: DHHA1; pfam02272 557760009191 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 557760009192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760009193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760009194 metal binding site [ion binding]; metal-binding site 557760009195 active site 557760009196 I-site; other site 557760009197 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557760009198 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 557760009199 putative ligand binding site [chemical binding]; other site 557760009200 putative NAD binding site [chemical binding]; other site 557760009201 catalytic site [active] 557760009202 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 557760009203 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557760009204 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760009205 metal binding site [ion binding]; metal-binding site 557760009206 active site 557760009207 I-site; other site 557760009208 Heme NO binding; Region: HNOB; pfam07700 557760009209 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557760009210 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 557760009211 motif II; other site 557760009212 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 557760009213 response regulator PleD; Reviewed; Region: pleD; PRK09581 557760009214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760009215 active site 557760009216 phosphorylation site [posttranslational modification] 557760009217 intermolecular recognition site; other site 557760009218 dimerization interface [polypeptide binding]; other site 557760009219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760009220 metal binding site [ion binding]; metal-binding site 557760009221 active site 557760009222 I-site; other site 557760009223 Heavy-metal resistance; Region: Metal_resist; pfam13801 557760009224 dimer interface [polypeptide binding]; other site 557760009225 RNA polymerase sigma factor; Provisional; Region: PRK12524 557760009226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760009227 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 557760009228 DNA binding residues [nucleotide binding] 557760009229 EF-hand domain pair; Region: EF_hand_5; pfam13499 557760009230 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 557760009231 Ca2+ binding site [ion binding]; other site 557760009232 Protein of unknown function (DUF983); Region: DUF983; cl02211 557760009233 NUDIX domain; Region: NUDIX; pfam00293 557760009234 nudix motif; other site 557760009235 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 557760009236 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 557760009237 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557760009238 active site 557760009239 catalytic tetrad [active] 557760009240 Uncharacterized conserved protein [Function unknown]; Region: COG4544 557760009241 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 557760009242 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 557760009243 active site 557760009244 HIGH motif; other site 557760009245 KMSKS motif; other site 557760009246 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 557760009247 tRNA binding surface [nucleotide binding]; other site 557760009248 anticodon binding site; other site 557760009249 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557760009250 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760009251 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 557760009252 ligand binding site [chemical binding]; other site 557760009253 flexible hinge region; other site 557760009254 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 557760009255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760009256 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557760009257 Walker A/P-loop; other site 557760009258 ATP binding site [chemical binding]; other site 557760009259 Q-loop/lid; other site 557760009260 ABC transporter signature motif; other site 557760009261 Walker B; other site 557760009262 D-loop; other site 557760009263 H-loop/switch region; other site 557760009264 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 557760009265 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 557760009266 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557760009267 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 557760009268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760009269 catalytic residue [active] 557760009270 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 557760009271 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 557760009272 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 557760009273 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 557760009274 Walker A/P-loop; other site 557760009275 ATP binding site [chemical binding]; other site 557760009276 Q-loop/lid; other site 557760009277 ABC transporter signature motif; other site 557760009278 Walker B; other site 557760009279 D-loop; other site 557760009280 H-loop/switch region; other site 557760009281 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 557760009282 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 557760009283 putative ABC transporter; Region: ycf24; CHL00085 557760009284 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 557760009285 catalytic residue [active] 557760009286 Transcriptional regulator; Region: Rrf2; cl17282 557760009287 Rrf2 family protein; Region: rrf2_super; TIGR00738 557760009288 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557760009289 HD domain; Region: HD_3; pfam13023 557760009290 isocitrate dehydrogenase; Validated; Region: PRK08299 557760009291 Uncharacterized conserved protein [Function unknown]; Region: COG1284 557760009292 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 557760009293 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 557760009294 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 557760009295 G1 box; other site 557760009296 putative GEF interaction site [polypeptide binding]; other site 557760009297 GTP/Mg2+ binding site [chemical binding]; other site 557760009298 Switch I region; other site 557760009299 G2 box; other site 557760009300 G3 box; other site 557760009301 Switch II region; other site 557760009302 G4 box; other site 557760009303 G5 box; other site 557760009304 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 557760009305 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 557760009306 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 557760009307 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 557760009308 putative active site [active] 557760009309 putative dimer interface [polypeptide binding]; other site 557760009310 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 557760009311 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 557760009312 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 557760009313 motif 1; other site 557760009314 active site 557760009315 motif 2; other site 557760009316 motif 3; other site 557760009317 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557760009318 recombinase A; Provisional; Region: recA; PRK09354 557760009319 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 557760009320 hexamer interface [polypeptide binding]; other site 557760009321 Walker A motif; other site 557760009322 ATP binding site [chemical binding]; other site 557760009323 Walker B motif; other site 557760009324 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557760009325 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760009326 dimer interface [polypeptide binding]; other site 557760009327 phosphorylation site [posttranslational modification] 557760009328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760009329 ATP binding site [chemical binding]; other site 557760009330 Mg2+ binding site [ion binding]; other site 557760009331 G-X-G motif; other site 557760009332 Response regulator receiver domain; Region: Response_reg; pfam00072 557760009333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760009334 active site 557760009335 phosphorylation site [posttranslational modification] 557760009336 intermolecular recognition site; other site 557760009337 dimerization interface [polypeptide binding]; other site 557760009338 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 557760009339 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 557760009340 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557760009341 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 557760009342 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557760009343 RES domain; Region: RES; smart00953 557760009344 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 557760009345 hypothetical protein; Provisional; Region: PRK14013 557760009346 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557760009347 Protein export membrane protein; Region: SecD_SecF; cl14618 557760009348 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557760009349 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 557760009350 lipoyl-biotinyl attachment site [posttranslational modification]; other site 557760009351 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557760009352 Cation efflux family; Region: Cation_efflux; cl00316 557760009353 putative protease; Provisional; Region: PRK15447 557760009354 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 557760009355 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 557760009356 Peptidase family U32; Region: Peptidase_U32; pfam01136 557760009357 SCP-2 sterol transfer family; Region: SCP2; cl01225 557760009358 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 557760009359 Flavoprotein; Region: Flavoprotein; pfam02441 557760009360 Predicted dehydrogenase [General function prediction only]; Region: COG0579 557760009361 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557760009362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 557760009363 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 557760009364 active site 557760009365 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 557760009366 putative catalytic site [active] 557760009367 putative metal binding site [ion binding]; other site 557760009368 putative phosphate binding site [ion binding]; other site 557760009369 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 557760009370 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 557760009371 putative active site [active] 557760009372 catalytic site [active] 557760009373 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 557760009374 putative active site [active] 557760009375 catalytic site [active] 557760009376 Cytochrome C' Region: Cytochrom_C_2; pfam01322 557760009377 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 557760009378 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 557760009379 intersubunit interface [polypeptide binding]; other site 557760009380 active site 557760009381 Zn2+ binding site [ion binding]; other site 557760009382 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 557760009383 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 557760009384 Hemerythrin-like domain; Region: Hr-like; cd12108 557760009385 Fe binding site [ion binding]; other site 557760009386 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557760009387 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557760009388 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557760009389 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 557760009390 motif 1; other site 557760009391 dimer interface [polypeptide binding]; other site 557760009392 active site 557760009393 motif 2; other site 557760009394 motif 3; other site 557760009395 elongation factor P; Validated; Region: PRK00529 557760009396 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557760009397 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 557760009398 RNA binding site [nucleotide binding]; other site 557760009399 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 557760009400 RNA binding site [nucleotide binding]; other site 557760009401 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 557760009402 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 557760009403 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 557760009404 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 557760009405 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 557760009406 NADP binding site [chemical binding]; other site 557760009407 homodimer interface [polypeptide binding]; other site 557760009408 active site 557760009409 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 557760009410 Cupin domain; Region: Cupin_2; pfam07883 557760009411 DctM-like transporters; Region: DctM; pfam06808 557760009412 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760009413 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557760009414 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760009415 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760009416 glucuronate isomerase; Reviewed; Region: PRK02925 557760009417 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 557760009418 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760009419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760009420 DNA-binding site [nucleotide binding]; DNA binding site 557760009421 FCD domain; Region: FCD; pfam07729 557760009422 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 557760009423 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760009424 substrate binding site [chemical binding]; other site 557760009425 ATP binding site [chemical binding]; other site 557760009426 PAS fold; Region: PAS_4; pfam08448 557760009427 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760009428 putative active site [active] 557760009429 heme pocket [chemical binding]; other site 557760009430 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760009431 dimer interface [polypeptide binding]; other site 557760009432 phosphorylation site [posttranslational modification] 557760009433 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760009434 ATP binding site [chemical binding]; other site 557760009435 Mg2+ binding site [ion binding]; other site 557760009436 G-X-G motif; other site 557760009437 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 557760009438 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 557760009439 hydrogenase 1 large subunit; Provisional; Region: PRK10170 557760009440 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 557760009441 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 557760009442 Acylphosphatase; Region: Acylphosphatase; pfam00708 557760009443 HypF finger; Region: zf-HYPF; pfam07503 557760009444 HypF finger; Region: zf-HYPF; pfam07503 557760009445 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 557760009446 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 557760009447 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 557760009448 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 557760009449 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 557760009450 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 557760009451 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 557760009452 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 557760009453 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 557760009454 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 557760009455 putative substrate-binding site; other site 557760009456 nickel binding site [ion binding]; other site 557760009457 HupF/HypC family; Region: HupF_HypC; pfam01455 557760009458 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 557760009459 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 557760009460 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 557760009461 Rubredoxin; Region: Rubredoxin; pfam00301 557760009462 iron binding site [ion binding]; other site 557760009463 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 557760009464 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 557760009465 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 557760009466 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 557760009467 G1 box; other site 557760009468 GTP/Mg2+ binding site [chemical binding]; other site 557760009469 G2 box; other site 557760009470 Switch I region; other site 557760009471 Switch II region; other site 557760009472 G4 box; other site 557760009473 G5 box; other site 557760009474 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557760009475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760009476 active site 557760009477 phosphorylation site [posttranslational modification] 557760009478 intermolecular recognition site; other site 557760009479 dimerization interface [polypeptide binding]; other site 557760009480 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 557760009481 Walker A motif; other site 557760009482 ATP binding site [chemical binding]; other site 557760009483 Walker B motif; other site 557760009484 arginine finger; other site 557760009485 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760009486 HupF/HypC family; Region: HupF_HypC; cl00394 557760009487 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 557760009488 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 557760009489 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 557760009490 dimerization interface [polypeptide binding]; other site 557760009491 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 557760009492 ATP binding site [chemical binding]; other site 557760009493 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 557760009494 active site residue [active] 557760009495 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760009496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760009497 active site 557760009498 phosphorylation site [posttranslational modification] 557760009499 intermolecular recognition site; other site 557760009500 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 557760009501 dimerization interface [polypeptide binding]; other site 557760009502 DNA binding residues [nucleotide binding] 557760009503 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760009504 PAS domain; Region: PAS_9; pfam13426 557760009505 putative active site [active] 557760009506 heme pocket [chemical binding]; other site 557760009507 PAS fold; Region: PAS_7; pfam12860 557760009508 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760009509 PAS domain; Region: PAS_9; pfam13426 557760009510 putative active site [active] 557760009511 heme pocket [chemical binding]; other site 557760009512 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760009513 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760009514 ATP binding site [chemical binding]; other site 557760009515 Mg2+ binding site [ion binding]; other site 557760009516 G-X-G motif; other site 557760009517 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557760009518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760009519 active site 557760009520 phosphorylation site [posttranslational modification] 557760009521 intermolecular recognition site; other site 557760009522 dimerization interface [polypeptide binding]; other site 557760009523 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 557760009524 active site 557760009525 catalytic residues [active] 557760009526 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 557760009527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760009528 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760009529 NAD(P) binding site [chemical binding]; other site 557760009530 active site 557760009531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 557760009532 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 557760009533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 557760009534 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 557760009535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 557760009536 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 557760009537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760009538 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 557760009539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760009540 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760009541 NAD(P) binding site [chemical binding]; other site 557760009542 active site 557760009543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760009544 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557760009545 NAD(P) binding site [chemical binding]; other site 557760009546 active site 557760009547 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557760009548 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 557760009549 putative NAD(P) binding site [chemical binding]; other site 557760009550 catalytic Zn binding site [ion binding]; other site 557760009551 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557760009552 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557760009553 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 557760009554 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 557760009555 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 557760009556 putative DNA binding site [nucleotide binding]; other site 557760009557 putative homodimer interface [polypeptide binding]; other site 557760009558 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 557760009559 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 557760009560 heterodimer interface [polypeptide binding]; other site 557760009561 DNA binding site [nucleotide binding] 557760009562 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 557760009563 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 557760009564 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 557760009565 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 557760009566 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 557760009567 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 557760009568 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 557760009569 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 557760009570 homocitrate synthase; Region: LysS_fung_arch; TIGR02146 557760009571 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 557760009572 active site 557760009573 catalytic residues [active] 557760009574 metal binding site [ion binding]; metal-binding site 557760009575 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 557760009576 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557760009577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760009578 catalytic residue [active] 557760009579 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557760009580 trimerization site [polypeptide binding]; other site 557760009581 active site 557760009582 NifU-like domain; Region: NifU; pfam01106 557760009583 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 557760009584 NifQ; Region: NifQ; pfam04891 557760009585 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 557760009586 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 557760009587 probable nitrogen fixation protein; Region: TIGR02935 557760009588 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 557760009589 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 557760009590 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 557760009591 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 557760009592 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 557760009593 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 557760009594 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 557760009595 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 557760009596 MoFe protein beta/alpha subunit interactions; other site 557760009597 Beta subunit P cluster binding residues; other site 557760009598 MoFe protein beta subunit/Fe protein contacts; other site 557760009599 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 557760009600 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 557760009601 MoFe protein alpha/beta subunit interactions; other site 557760009602 Alpha subunit P cluster binding residues; other site 557760009603 FeMoco binding residues [chemical binding]; other site 557760009604 MoFe protein alpha subunit/Fe protein contacts; other site 557760009605 MoFe protein dimer/ dimer interactions; other site 557760009606 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 557760009607 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 557760009608 Nucleotide-binding sites [chemical binding]; other site 557760009609 Walker A motif; other site 557760009610 Switch I region of nucleotide binding site; other site 557760009611 Fe4S4 binding sites [ion binding]; other site 557760009612 Switch II region of nucleotide binding site; other site 557760009613 SIR2-like domain; Region: SIR2_2; pfam13289 557760009614 NifT/FixU protein; Region: NifT; pfam06988 557760009615 NifZ domain; Region: NifZ; pfam04319 557760009616 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 557760009617 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 557760009618 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 557760009619 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 557760009620 FeS/SAM binding site; other site 557760009621 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 557760009622 Nif-specific regulatory protein; Region: nifA; TIGR01817 557760009623 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 557760009624 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 557760009625 Walker A motif; other site 557760009626 ATP binding site [chemical binding]; other site 557760009627 Walker B motif; other site 557760009628 arginine finger; other site 557760009629 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760009630 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 557760009631 active site 557760009632 catalytic residue [active] 557760009633 Sporulation related domain; Region: SPOR; pfam05036 557760009634 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 557760009635 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557760009636 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 557760009637 thymidylate kinase; Validated; Region: tmk; PRK00698 557760009638 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 557760009639 TMP-binding site; other site 557760009640 ATP-binding site [chemical binding]; other site 557760009641 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 557760009642 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 557760009643 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 557760009644 Walker A motif; other site 557760009645 ATP binding site [chemical binding]; other site 557760009646 Walker B motif; other site 557760009647 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 557760009648 heat shock protein HtpX; Provisional; Region: PRK01345 557760009649 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 557760009650 RuvA N terminal domain; Region: RuvA_N; pfam01330 557760009651 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 557760009652 active site 557760009653 putative DNA-binding cleft [nucleotide binding]; other site 557760009654 dimer interface [polypeptide binding]; other site 557760009655 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 557760009656 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 557760009657 Methyltransferase domain; Region: Methyltransf_18; pfam12847 557760009658 S-adenosylmethionine binding site [chemical binding]; other site 557760009659 methionine sulfoxide reductase A; Provisional; Region: PRK00058 557760009660 primosome assembly protein PriA; Validated; Region: PRK05580 557760009661 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 557760009662 ATP binding site [chemical binding]; other site 557760009663 putative Mg++ binding site [ion binding]; other site 557760009664 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 557760009665 active site 557760009666 intersubunit interactions; other site 557760009667 catalytic residue [active] 557760009668 Protein of unknown function, DUF484; Region: DUF484; cl17449 557760009669 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 557760009670 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 557760009671 active site 557760009672 DNA binding site [nucleotide binding] 557760009673 Int/Topo IB signature motif; other site 557760009674 EF-hand domain pair; Region: EF_hand_5; pfam13499 557760009675 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 557760009676 Ca2+ binding site [ion binding]; other site 557760009677 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 557760009678 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 557760009679 EamA-like transporter family; Region: EamA; cl17759 557760009680 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 557760009681 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 557760009682 active site 557760009683 DNA binding site [nucleotide binding] 557760009684 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 557760009685 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 557760009686 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557760009687 active site 557760009688 HIGH motif; other site 557760009689 nucleotide binding site [chemical binding]; other site 557760009690 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 557760009691 active site 557760009692 KMSKS motif; other site 557760009693 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 557760009694 tRNA binding surface [nucleotide binding]; other site 557760009695 anticodon binding site; other site 557760009696 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557760009697 hypothetical protein; Provisional; Region: PRK05415 557760009698 Domain of unknown function (DUF697); Region: DUF697; cl12064 557760009699 YcjX-like family, DUF463; Region: DUF463; pfam04317 557760009700 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 557760009701 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 557760009702 dimerization interface 3.5A [polypeptide binding]; other site 557760009703 active site 557760009704 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557760009705 active site 557760009706 catalytic site [active] 557760009707 substrate binding site [chemical binding]; other site 557760009708 Response regulator receiver domain; Region: Response_reg; pfam00072 557760009709 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760009710 active site 557760009711 phosphorylation site [posttranslational modification] 557760009712 intermolecular recognition site; other site 557760009713 dimerization interface [polypeptide binding]; other site 557760009714 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 557760009715 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 557760009716 ligand binding site [chemical binding]; other site 557760009717 flexible hinge region; other site 557760009718 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 557760009719 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557760009720 metal binding triad; other site 557760009721 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 557760009722 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 557760009723 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 557760009724 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 557760009725 adenylate kinase; Reviewed; Region: adk; PRK00279 557760009726 AMP-binding site [chemical binding]; other site 557760009727 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557760009728 acetyl-CoA synthetase; Provisional; Region: PRK00174 557760009729 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 557760009730 active site 557760009731 CoA binding site [chemical binding]; other site 557760009732 acyl-activating enzyme (AAE) consensus motif; other site 557760009733 AMP binding site [chemical binding]; other site 557760009734 acetate binding site [chemical binding]; other site 557760009735 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557760009736 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 557760009737 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557760009738 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 557760009739 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 557760009740 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 557760009741 tellurite resistance protein terB; Region: terB; cd07176 557760009742 putative metal binding site [ion binding]; other site 557760009743 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 557760009744 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557760009745 active site 557760009746 nucleotide binding site [chemical binding]; other site 557760009747 HIGH motif; other site 557760009748 KMSKS motif; other site 557760009749 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 557760009750 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 557760009751 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 557760009752 active site 557760009753 (T/H)XGH motif; other site 557760009754 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 557760009755 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760009756 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760009757 ABC transporter; Region: ABC_tran_2; pfam12848 557760009758 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557760009759 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 557760009760 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 557760009761 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557760009762 DNA-binding site [nucleotide binding]; DNA binding site 557760009763 RNA-binding motif; other site 557760009764 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 557760009765 Sulfatase; Region: Sulfatase; cl17466 557760009766 choline-sulfatase; Region: chol_sulfatase; TIGR03417 557760009767 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 557760009768 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 557760009769 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 557760009770 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 557760009771 active site 557760009772 Zn binding site [ion binding]; other site 557760009773 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 557760009774 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 557760009775 ATP binding site [chemical binding]; other site 557760009776 substrate interface [chemical binding]; other site 557760009777 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557760009778 trimer interface [polypeptide binding]; other site 557760009779 active site 557760009780 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 557760009781 Flavoprotein; Region: Flavoprotein; pfam02441 557760009782 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 557760009783 Protein of unknown function, DUF399; Region: DUF399; pfam04187 557760009784 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 557760009785 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760009786 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 557760009787 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 557760009788 homotrimer interface [polypeptide binding]; other site 557760009789 Walker A motif; other site 557760009790 GTP binding site [chemical binding]; other site 557760009791 Walker B motif; other site 557760009792 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 557760009793 catalytic core [active] 557760009794 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 557760009795 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 557760009796 active site 557760009797 DNA binding site [nucleotide binding] 557760009798 Int/Topo IB signature motif; other site 557760009799 ParB-like nuclease domain; Region: ParB; smart00470 557760009800 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557760009801 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 557760009802 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 557760009803 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 557760009804 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 557760009805 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 557760009806 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 557760009807 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 557760009808 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 557760009809 CRISPR-associated protein Cas4; Region: cas4; TIGR00372 557760009810 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 557760009811 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 557760009812 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 557760009813 Uncharacterized conserved protein [Function unknown]; Region: COG2128 557760009814 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 557760009815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760009816 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 557760009817 DNA binding residues [nucleotide binding] 557760009818 SnoaL-like domain; Region: SnoaL_2; pfam12680 557760009819 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760009820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760009821 NAD(P) binding site [chemical binding]; other site 557760009822 active site 557760009823 Predicted transcriptional regulators [Transcription]; Region: COG1733 557760009824 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557760009825 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557760009826 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557760009827 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 557760009828 putative NAD(P) binding site [chemical binding]; other site 557760009829 Cupin domain; Region: Cupin_2; cl17218 557760009830 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557760009831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760009832 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557760009833 Predicted ester cyclase [General function prediction only]; Region: COG5485 557760009834 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 557760009835 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 557760009836 ATP binding site [chemical binding]; other site 557760009837 putative Mg++ binding site [ion binding]; other site 557760009838 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 557760009839 nucleotide binding region [chemical binding]; other site 557760009840 ATP-binding site [chemical binding]; other site 557760009841 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557760009842 Part of AAA domain; Region: AAA_19; pfam13245 557760009843 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557760009844 Family description; Region: UvrD_C_2; pfam13538 557760009845 Domain of unknown function (DUF329); Region: DUF329; pfam03884 557760009846 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 557760009847 Maf-like protein; Reviewed; Region: PRK00078 557760009848 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 557760009849 active site 557760009850 dimer interface [polypeptide binding]; other site 557760009851 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 557760009852 rRNA binding site [nucleotide binding]; other site 557760009853 predicted 30S ribosome binding site; other site 557760009854 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 557760009855 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557760009856 putative active site [active] 557760009857 catalytic triad [active] 557760009858 putative dimer interface [polypeptide binding]; other site 557760009859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557760009860 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557760009861 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557760009862 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557760009863 active site 557760009864 hypothetical protein; Provisional; Region: PRK02853 557760009865 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 557760009866 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 557760009867 NAD binding site [chemical binding]; other site 557760009868 dimerization interface [polypeptide binding]; other site 557760009869 product binding site; other site 557760009870 substrate binding site [chemical binding]; other site 557760009871 zinc binding site [ion binding]; other site 557760009872 catalytic residues [active] 557760009873 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 557760009874 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557760009875 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 557760009876 hinge; other site 557760009877 active site 557760009878 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 557760009879 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 557760009880 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760009881 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 557760009882 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557760009883 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557760009884 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 557760009885 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 557760009886 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 557760009887 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 557760009888 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 557760009889 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 557760009890 non-specific DNA binding site [nucleotide binding]; other site 557760009891 salt bridge; other site 557760009892 sequence-specific DNA binding site [nucleotide binding]; other site 557760009893 Cupin domain; Region: Cupin_2; pfam07883 557760009894 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760009895 EamA-like transporter family; Region: EamA; pfam00892 557760009896 EamA-like transporter family; Region: EamA; pfam00892 557760009897 MASE1; Region: MASE1; cl17823 557760009898 MASE1; Region: MASE1; cl17823 557760009899 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760009900 Histidine kinase; Region: HisKA_2; pfam07568 557760009901 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760009902 ATP binding site [chemical binding]; other site 557760009903 Mg2+ binding site [ion binding]; other site 557760009904 G-X-G motif; other site 557760009905 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 557760009906 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760009907 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 557760009908 Walker A/P-loop; other site 557760009909 ATP binding site [chemical binding]; other site 557760009910 Q-loop/lid; other site 557760009911 ABC transporter signature motif; other site 557760009912 Walker B; other site 557760009913 D-loop; other site 557760009914 H-loop/switch region; other site 557760009915 NMT1/THI5 like; Region: NMT1; pfam09084 557760009916 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 557760009917 membrane-bound complex binding site; other site 557760009918 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 557760009919 dimer interface [polypeptide binding]; other site 557760009920 substrate binding site [chemical binding]; other site 557760009921 ATP binding site [chemical binding]; other site 557760009922 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 557760009923 thiamine phosphate binding site [chemical binding]; other site 557760009924 active site 557760009925 pyrophosphate binding site [ion binding]; other site 557760009926 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 557760009927 substrate binding site [chemical binding]; other site 557760009928 multimerization interface [polypeptide binding]; other site 557760009929 ATP binding site [chemical binding]; other site 557760009930 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 557760009931 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760009932 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760009933 catalytic residue [active] 557760009934 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557760009935 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 557760009936 active site 557760009937 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 557760009938 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 557760009939 NAD binding site [chemical binding]; other site 557760009940 homodimer interface [polypeptide binding]; other site 557760009941 active site 557760009942 substrate binding site [chemical binding]; other site 557760009943 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 557760009944 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557760009945 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557760009946 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 557760009947 hypothetical protein; Validated; Region: PRK00110 557760009948 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 557760009949 transmembrane helices; other site 557760009950 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 557760009951 TrkA-C domain; Region: TrkA_C; pfam02080 557760009952 TrkA-C domain; Region: TrkA_C; pfam02080 557760009953 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 557760009954 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 557760009955 putative active site [active] 557760009956 metal binding site [ion binding]; metal-binding site 557760009957 homodimer binding site [polypeptide binding]; other site 557760009958 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 557760009959 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 557760009960 ATP binding site [chemical binding]; other site 557760009961 putative Mg++ binding site [ion binding]; other site 557760009962 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 557760009963 nucleotide binding region [chemical binding]; other site 557760009964 ATP-binding site [chemical binding]; other site 557760009965 DEAD/H associated; Region: DEAD_assoc; pfam08494 557760009966 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 557760009967 active site 557760009968 metal binding site [ion binding]; metal-binding site 557760009969 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 557760009970 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 557760009971 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 557760009972 homodimer interface [polypeptide binding]; other site 557760009973 NADP binding site [chemical binding]; other site 557760009974 substrate binding site [chemical binding]; other site 557760009975 Chorismate mutase type II; Region: CM_2; smart00830 557760009976 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 557760009977 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 557760009978 Potassium binding sites [ion binding]; other site 557760009979 Cesium cation binding sites [ion binding]; other site 557760009980 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 557760009981 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 557760009982 Walker A motif; other site 557760009983 ATP binding site [chemical binding]; other site 557760009984 Walker B motif; other site 557760009985 arginine finger; other site 557760009986 Peptidase family M41; Region: Peptidase_M41; pfam01434 557760009987 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 557760009988 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 557760009989 Ligand Binding Site [chemical binding]; other site 557760009990 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 557760009991 Tetratricopeptide repeat; Region: TPR_6; pfam13174 557760009992 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760009993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760009994 ligand binding site [chemical binding]; other site 557760009995 translocation protein TolB; Provisional; Region: tolB; PRK05137 557760009996 TolB amino-terminal domain; Region: TolB_N; pfam04052 557760009997 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557760009998 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557760009999 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557760010000 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557760010001 TolR protein; Region: tolR; TIGR02801 557760010002 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557760010003 TolQ protein; Region: tolQ; TIGR02796 557760010004 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 557760010005 active site 557760010006 DNA polymerase III subunit delta'; Validated; Region: PRK07471 557760010007 DNA polymerase III subunit delta'; Validated; Region: PRK08485 557760010008 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557760010009 active site 557760010010 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 557760010011 putative hydrolase; Provisional; Region: PRK02113 557760010012 Predicted permeases [General function prediction only]; Region: COG0679 557760010013 Predicted membrane protein [Function unknown]; Region: COG5373 557760010014 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 557760010015 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 557760010016 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; cl17708 557760010017 domain interfaces; other site 557760010018 active site 557760010019 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 557760010020 substrate binding site [chemical binding]; other site 557760010021 active site 557760010022 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 557760010023 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 557760010024 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 557760010025 classical (c) SDRs; Region: SDR_c; cd05233 557760010026 NAD(P) binding site [chemical binding]; other site 557760010027 active site 557760010028 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 557760010029 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 557760010030 S-adenosylmethionine binding site [chemical binding]; other site 557760010031 Uncharacterized conserved protein [Function unknown]; Region: COG2127 557760010032 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 557760010033 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 557760010034 motif II; other site 557760010035 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557760010036 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 557760010037 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 557760010038 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 557760010039 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557760010040 metal-binding site [ion binding] 557760010041 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557760010042 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 557760010043 motif II; other site 557760010044 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 557760010045 FixH; Region: FixH; pfam05751 557760010046 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 557760010047 4Fe-4S binding domain; Region: Fer4_5; pfam12801 557760010048 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 557760010049 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 557760010050 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 557760010051 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557760010052 Cytochrome c; Region: Cytochrom_C; pfam00034 557760010053 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 557760010054 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 557760010055 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 557760010056 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 557760010057 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557760010058 Low-spin heme binding site [chemical binding]; other site 557760010059 Putative water exit pathway; other site 557760010060 Binuclear center (active site) [active] 557760010061 Putative proton exit pathway; other site 557760010062 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 557760010063 Ligand Binding Site [chemical binding]; other site 557760010064 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 557760010065 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760010066 ligand binding site [chemical binding]; other site 557760010067 flexible hinge region; other site 557760010068 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 557760010069 non-specific DNA interactions [nucleotide binding]; other site 557760010070 DNA binding site [nucleotide binding] 557760010071 sequence specific DNA binding site [nucleotide binding]; other site 557760010072 putative cAMP binding site [chemical binding]; other site 557760010073 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 557760010074 HemN C-terminal domain; Region: HemN_C; pfam06969 557760010075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760010076 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 557760010077 putative ADP-binding pocket [chemical binding]; other site 557760010078 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 557760010079 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760010080 Walker A/P-loop; other site 557760010081 ATP binding site [chemical binding]; other site 557760010082 Q-loop/lid; other site 557760010083 ABC transporter signature motif; other site 557760010084 Walker B; other site 557760010085 D-loop; other site 557760010086 H-loop/switch region; other site 557760010087 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 557760010088 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760010089 Walker A/P-loop; other site 557760010090 ATP binding site [chemical binding]; other site 557760010091 Q-loop/lid; other site 557760010092 ABC transporter signature motif; other site 557760010093 Walker B; other site 557760010094 D-loop; other site 557760010095 H-loop/switch region; other site 557760010096 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 557760010097 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 557760010098 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 557760010099 dimer interface [polypeptide binding]; other site 557760010100 conserved gate region; other site 557760010101 putative PBP binding loops; other site 557760010102 ABC-ATPase subunit interface; other site 557760010103 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 557760010104 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 557760010105 dimer interface [polypeptide binding]; other site 557760010106 conserved gate region; other site 557760010107 ABC-ATPase subunit interface; other site 557760010108 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557760010109 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_14; cd08497 557760010110 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 557760010111 Cytochrome c2 [Energy production and conversion]; Region: COG3474 557760010112 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 557760010113 Prephenate dehydratase; Region: PDT; pfam00800 557760010114 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 557760010115 putative L-Phe binding site [chemical binding]; other site 557760010116 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 557760010117 hydrophobic ligand binding site; other site 557760010118 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 557760010119 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 557760010120 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 557760010121 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 557760010122 putative NADH binding site [chemical binding]; other site 557760010123 putative active site [active] 557760010124 nudix motif; other site 557760010125 putative metal binding site [ion binding]; other site 557760010126 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 557760010127 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 557760010128 active site 557760010129 metal binding site [ion binding]; metal-binding site 557760010130 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 557760010131 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 557760010132 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 557760010133 Walker A motif; other site 557760010134 ATP binding site [chemical binding]; other site 557760010135 Walker B motif; other site 557760010136 arginine finger; other site 557760010137 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 557760010138 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 557760010139 hypothetical protein; Validated; Region: PRK00153 557760010140 recombination protein RecR; Reviewed; Region: recR; PRK00076 557760010141 RecR protein; Region: RecR; pfam02132 557760010142 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 557760010143 putative active site [active] 557760010144 putative metal-binding site [ion binding]; other site 557760010145 tetramer interface [polypeptide binding]; other site 557760010146 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 557760010147 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 557760010148 B1 nucleotide binding pocket [chemical binding]; other site 557760010149 B2 nucleotide binding pocket [chemical binding]; other site 557760010150 CAS motifs; other site 557760010151 active site 557760010152 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 557760010153 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 557760010154 NAD(P) binding site [chemical binding]; other site 557760010155 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 557760010156 COQ9; Region: COQ9; pfam08511 557760010157 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 557760010158 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 557760010159 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 557760010160 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 557760010161 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 557760010162 S-adenosylmethionine binding site [chemical binding]; other site 557760010163 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760010164 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 557760010165 dimerization interface [polypeptide binding]; other site 557760010166 putative DNA binding site [nucleotide binding]; other site 557760010167 putative Zn2+ binding site [ion binding]; other site 557760010168 AsnC family; Region: AsnC_trans_reg; pfam01037 557760010169 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 557760010170 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 557760010171 hexamer interface [polypeptide binding]; other site 557760010172 ligand binding site [chemical binding]; other site 557760010173 putative active site [active] 557760010174 NAD(P) binding site [chemical binding]; other site 557760010175 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 557760010176 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 557760010177 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 557760010178 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557760010179 catalytic residues [active] 557760010180 argininosuccinate lyase; Provisional; Region: PRK00855 557760010181 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557760010182 active sites [active] 557760010183 tetramer interface [polypeptide binding]; other site 557760010184 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 557760010185 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557760010186 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 557760010187 active site 557760010188 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557760010189 substrate binding site [chemical binding]; other site 557760010190 catalytic residues [active] 557760010191 dimer interface [polypeptide binding]; other site 557760010192 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 557760010193 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 557760010194 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 557760010195 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557760010196 Walker A/P-loop; other site 557760010197 ATP binding site [chemical binding]; other site 557760010198 Q-loop/lid; other site 557760010199 ABC transporter signature motif; other site 557760010200 Walker B; other site 557760010201 D-loop; other site 557760010202 H-loop/switch region; other site 557760010203 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 557760010204 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557760010205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557760010206 putative acyl-acceptor binding pocket; other site 557760010207 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760010208 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557760010209 Coenzyme A binding pocket [chemical binding]; other site 557760010210 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 557760010211 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 557760010212 Walker A motif; other site 557760010213 AzlC protein; Region: AzlC; pfam03591 557760010214 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 557760010215 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 557760010216 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557760010217 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557760010218 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557760010219 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760010220 active site 557760010221 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557760010222 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 557760010223 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 557760010224 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 557760010225 putative acyltransferase; Provisional; Region: PRK05790 557760010226 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 557760010227 dimer interface [polypeptide binding]; other site 557760010228 active site 557760010229 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 557760010230 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 557760010231 NAD(P) binding site [chemical binding]; other site 557760010232 homotetramer interface [polypeptide binding]; other site 557760010233 homodimer interface [polypeptide binding]; other site 557760010234 active site 557760010235 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 557760010236 S-adenosylmethionine binding site [chemical binding]; other site 557760010237 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 557760010238 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557760010239 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557760010240 substrate binding pocket [chemical binding]; other site 557760010241 chain length determination region; other site 557760010242 substrate-Mg2+ binding site; other site 557760010243 catalytic residues [active] 557760010244 aspartate-rich region 1; other site 557760010245 active site lid residues [active] 557760010246 aspartate-rich region 2; other site 557760010247 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 557760010248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760010249 Coenzyme A binding pocket [chemical binding]; other site 557760010250 Protein of unknown function, DUF481; Region: DUF481; pfam04338 557760010251 transcription antitermination factor NusB; Region: nusB; TIGR01951 557760010252 putative RNA binding site [nucleotide binding]; other site 557760010253 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 557760010254 homopentamer interface [polypeptide binding]; other site 557760010255 active site 557760010256 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 557760010257 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 557760010258 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 557760010259 dimerization interface [polypeptide binding]; other site 557760010260 active site 557760010261 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 557760010262 active site 557760010263 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 557760010264 Lumazine binding domain; Region: Lum_binding; pfam00677 557760010265 Lumazine binding domain; Region: Lum_binding; pfam00677 557760010266 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 557760010267 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 557760010268 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 557760010269 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 557760010270 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 557760010271 non-specific DNA binding site [nucleotide binding]; other site 557760010272 salt bridge; other site 557760010273 sequence-specific DNA binding site [nucleotide binding]; other site 557760010274 aspartate aminotransferase; Provisional; Region: PRK05764 557760010275 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 557760010276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760010277 homodimer interface [polypeptide binding]; other site 557760010278 catalytic residue [active] 557760010279 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 557760010280 putative efflux protein, MATE family; Region: matE; TIGR00797 557760010281 cation binding site [ion binding]; other site 557760010282 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 557760010283 S-adenosylmethionine binding site [chemical binding]; other site 557760010284 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 557760010285 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557760010286 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 557760010287 DNA binding residues [nucleotide binding] 557760010288 dimerization interface [polypeptide binding]; other site 557760010289 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557760010290 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760010291 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 557760010292 putative C-terminal domain interface [polypeptide binding]; other site 557760010293 putative GSH binding site (G-site) [chemical binding]; other site 557760010294 putative dimer interface [polypeptide binding]; other site 557760010295 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 557760010296 dimer interface [polypeptide binding]; other site 557760010297 N-terminal domain interface [polypeptide binding]; other site 557760010298 putative substrate binding pocket (H-site) [chemical binding]; other site 557760010299 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 557760010300 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760010301 ATP binding site [chemical binding]; other site 557760010302 Mg2+ binding site [ion binding]; other site 557760010303 G-X-G motif; other site 557760010304 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 557760010305 anchoring element; other site 557760010306 dimer interface [polypeptide binding]; other site 557760010307 ATP binding site [chemical binding]; other site 557760010308 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 557760010309 active site 557760010310 metal binding site [ion binding]; metal-binding site 557760010311 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557760010312 mannonate dehydratase; Region: uxuA; TIGR00695 557760010313 mannonate dehydratase; Provisional; Region: PRK03906 557760010314 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 557760010315 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 557760010316 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 557760010317 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 557760010318 RNA binding site [nucleotide binding]; other site 557760010319 Cytochrome c; Region: Cytochrom_C; cl11414 557760010320 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557760010321 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557760010322 Walker A/P-loop; other site 557760010323 ATP binding site [chemical binding]; other site 557760010324 Q-loop/lid; other site 557760010325 ABC transporter signature motif; other site 557760010326 Walker B; other site 557760010327 D-loop; other site 557760010328 H-loop/switch region; other site 557760010329 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 557760010330 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557760010331 FtsX-like permease family; Region: FtsX; pfam02687 557760010332 prolyl-tRNA synthetase; Provisional; Region: PRK12325 557760010333 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 557760010334 dimer interface [polypeptide binding]; other site 557760010335 motif 1; other site 557760010336 active site 557760010337 motif 2; other site 557760010338 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557760010339 active site 557760010340 motif 3; other site 557760010341 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 557760010342 anticodon binding site; other site 557760010343 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557760010344 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557760010345 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 557760010346 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 557760010347 polyphosphate kinase; Provisional; Region: PRK05443 557760010348 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 557760010349 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 557760010350 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 557760010351 putative domain interface [polypeptide binding]; other site 557760010352 putative active site [active] 557760010353 catalytic site [active] 557760010354 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 557760010355 putative domain interface [polypeptide binding]; other site 557760010356 putative active site [active] 557760010357 catalytic site [active] 557760010358 exopolyphosphatase; Region: exo_poly_only; TIGR03706 557760010359 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557760010360 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 557760010361 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557760010362 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760010363 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 557760010364 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 557760010365 putative metal binding site [ion binding]; other site 557760010366 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 557760010367 HSP70 interaction site [polypeptide binding]; other site 557760010368 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 557760010369 Protein of unknown function (DUF1636); Region: DUF1636; cl17843 557760010370 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 557760010371 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 557760010372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760010373 catalytic residue [active] 557760010374 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 557760010375 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 557760010376 FeS/SAM binding site; other site 557760010377 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 557760010378 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 557760010379 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 557760010380 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 557760010381 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 557760010382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760010383 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 557760010384 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 557760010385 dimerization interface [polypeptide binding]; other site 557760010386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 557760010387 cobyric acid synthase; Provisional; Region: PRK00784 557760010388 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760010389 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557760010390 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557760010391 catalytic triad [active] 557760010392 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 557760010393 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557760010394 HIGH motif; other site 557760010395 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557760010396 active site 557760010397 KMSKS motif; other site 557760010398 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 557760010399 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557760010400 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 557760010401 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557760010402 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 557760010403 active site 557760010404 Zn binding site [ion binding]; other site 557760010405 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 557760010406 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 557760010407 active site 557760010408 dimer interface [polypeptide binding]; other site 557760010409 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 557760010410 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760010411 Walker A/P-loop; other site 557760010412 ATP binding site [chemical binding]; other site 557760010413 Q-loop/lid; other site 557760010414 ABC transporter signature motif; other site 557760010415 Walker B; other site 557760010416 D-loop; other site 557760010417 H-loop/switch region; other site 557760010418 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 557760010419 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760010420 Walker A/P-loop; other site 557760010421 ATP binding site [chemical binding]; other site 557760010422 Q-loop/lid; other site 557760010423 ABC transporter signature motif; other site 557760010424 Walker B; other site 557760010425 D-loop; other site 557760010426 H-loop/switch region; other site 557760010427 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760010428 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 557760010429 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 557760010430 dimer interface [polypeptide binding]; other site 557760010431 conserved gate region; other site 557760010432 ABC-ATPase subunit interface; other site 557760010433 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760010434 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 557760010435 dimer interface [polypeptide binding]; other site 557760010436 conserved gate region; other site 557760010437 putative PBP binding loops; other site 557760010438 ABC-ATPase subunit interface; other site 557760010439 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557760010440 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_7; cd08512 557760010441 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 557760010442 putative FMN binding site [chemical binding]; other site 557760010443 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 557760010444 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 557760010445 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 557760010446 dimer interface [polypeptide binding]; other site 557760010447 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760010448 substrate binding site [chemical binding]; other site 557760010449 Response regulator receiver domain; Region: Response_reg; pfam00072 557760010450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760010451 active site 557760010452 phosphorylation site [posttranslational modification] 557760010453 intermolecular recognition site; other site 557760010454 dimerization interface [polypeptide binding]; other site 557760010455 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557760010456 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760010457 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 557760010458 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 557760010459 dimer interface [polypeptide binding]; other site 557760010460 anticodon binding site; other site 557760010461 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557760010462 motif 1; other site 557760010463 dimer interface [polypeptide binding]; other site 557760010464 active site 557760010465 motif 2; other site 557760010466 GAD domain; Region: GAD; pfam02938 557760010467 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557760010468 active site 557760010469 motif 3; other site 557760010470 hypothetical protein; Provisional; Region: PRK07546 557760010471 substrate-cofactor binding pocket; other site 557760010472 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 557760010473 chorismate binding enzyme; Region: Chorismate_bind; cl10555 557760010474 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 557760010475 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557760010476 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557760010477 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557760010478 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557760010479 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557760010480 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 557760010481 IMP binding site; other site 557760010482 dimer interface [polypeptide binding]; other site 557760010483 partial ornithine binding site; other site 557760010484 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 557760010485 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 557760010486 ATP binding site [chemical binding]; other site 557760010487 Mg++ binding site [ion binding]; other site 557760010488 motif III; other site 557760010489 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 557760010490 nucleotide binding region [chemical binding]; other site 557760010491 ATP-binding site [chemical binding]; other site 557760010492 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 557760010493 acyl-CoA esterase; Provisional; Region: PRK10673 557760010494 PGAP1-like protein; Region: PGAP1; pfam07819 557760010495 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557760010496 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 557760010497 dimer interface [polypeptide binding]; other site 557760010498 active site 557760010499 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557760010500 folate binding site [chemical binding]; other site 557760010501 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 557760010502 ATP-NAD kinase; Region: NAD_kinase; pfam01513 557760010503 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 557760010504 putative active site [active] 557760010505 catalytic residue [active] 557760010506 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 557760010507 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 557760010508 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 557760010509 5S rRNA interface [nucleotide binding]; other site 557760010510 CTC domain interface [polypeptide binding]; other site 557760010511 L16 interface [polypeptide binding]; other site 557760010512 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 557760010513 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 557760010514 phosphate binding site [ion binding]; other site 557760010515 HPP family; Region: HPP; pfam04982 557760010516 FOG: CBS domain [General function prediction only]; Region: COG0517 557760010517 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 557760010518 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 557760010519 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 557760010520 substrate binding site [chemical binding]; other site 557760010521 active site 557760010522 catalytic residues [active] 557760010523 heterodimer interface [polypeptide binding]; other site 557760010524 GTP-binding protein YchF; Reviewed; Region: PRK09601 557760010525 YchF GTPase; Region: YchF; cd01900 557760010526 G1 box; other site 557760010527 GTP/Mg2+ binding site [chemical binding]; other site 557760010528 Switch I region; other site 557760010529 G2 box; other site 557760010530 Switch II region; other site 557760010531 G3 box; other site 557760010532 G4 box; other site 557760010533 G5 box; other site 557760010534 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 557760010535 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 557760010536 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 557760010537 Substrate binding site; other site 557760010538 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 557760010539 phosphomannomutase CpsG; Provisional; Region: PRK15414 557760010540 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 557760010541 active site 557760010542 substrate binding site [chemical binding]; other site 557760010543 metal binding site [ion binding]; metal-binding site 557760010544 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 557760010545 active site 557760010546 catalytic residues [active] 557760010547 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760010548 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 557760010549 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 557760010550 Lipopolysaccharide-assembly; Region: LptE; pfam04390 557760010551 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 557760010552 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557760010553 HIGH motif; other site 557760010554 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557760010555 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557760010556 active site 557760010557 KMSKS motif; other site 557760010558 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 557760010559 tRNA binding surface [nucleotide binding]; other site 557760010560 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 557760010561 Gram-negative porin; Region: Porin_4; pfam13609 557760010562 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 557760010563 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 557760010564 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557760010565 catalytic residue [active] 557760010566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 557760010567 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 557760010568 dimerization interface [polypeptide binding]; other site 557760010569 active site 557760010570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760010571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760010572 active site 557760010573 phosphorylation site [posttranslational modification] 557760010574 intermolecular recognition site; other site 557760010575 dimerization interface [polypeptide binding]; other site 557760010576 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 557760010577 DNA binding site [nucleotide binding] 557760010578 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 557760010579 putative catalytic site [active] 557760010580 putative phosphate binding site [ion binding]; other site 557760010581 active site 557760010582 metal binding site A [ion binding]; metal-binding site 557760010583 DNA binding site [nucleotide binding] 557760010584 putative AP binding site [nucleotide binding]; other site 557760010585 putative metal binding site B [ion binding]; other site 557760010586 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760010587 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760010588 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 557760010589 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 557760010590 diiron binding motif [ion binding]; other site 557760010591 Uncharacterized conserved protein [Function unknown]; Region: COG1633 557760010592 CCC1-related protein family; Region: CCC1_like_1; cd02437 557760010593 Predicted permeases [General function prediction only]; Region: COG0679 557760010594 S-formylglutathione hydrolase; Region: PLN02442 557760010595 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 557760010596 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 557760010597 ornithine cyclodeaminase; Validated; Region: PRK06141 557760010598 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 557760010599 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 557760010600 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 557760010601 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 557760010602 S-adenosylmethionine binding site [chemical binding]; other site 557760010603 EamA-like transporter family; Region: EamA; pfam00892 557760010604 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557760010605 EamA-like transporter family; Region: EamA; pfam00892 557760010606 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 557760010607 tartrate dehydrogenase; Region: TTC; TIGR02089 557760010608 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 557760010609 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 557760010610 hypothetical protein; Provisional; Region: PRK14812 557760010611 substrate binding site [chemical binding]; other site 557760010612 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 557760010613 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 557760010614 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 557760010615 substrate binding site [chemical binding]; other site 557760010616 ligand binding site [chemical binding]; other site 557760010617 SOUL heme-binding protein; Region: SOUL; pfam04832 557760010618 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 557760010619 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 557760010620 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 557760010621 RNA/DNA hybrid binding site [nucleotide binding]; other site 557760010622 active site 557760010623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760010624 active site 557760010625 phosphorylation site [posttranslational modification] 557760010626 intermolecular recognition site; other site 557760010627 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 557760010628 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 557760010629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760010630 homodimer interface [polypeptide binding]; other site 557760010631 catalytic residue [active] 557760010632 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 557760010633 active site 557760010634 catalytic residues [active] 557760010635 metal binding site [ion binding]; metal-binding site 557760010636 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 557760010637 active site 557760010638 catalytic residues [active] 557760010639 metal binding site [ion binding]; metal-binding site 557760010640 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 557760010641 active site 557760010642 catalytic residues [active] 557760010643 metal binding site [ion binding]; metal-binding site 557760010644 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 557760010645 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 557760010646 putative active site [active] 557760010647 substrate binding site [chemical binding]; other site 557760010648 putative cosubstrate binding site; other site 557760010649 catalytic site [active] 557760010650 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 557760010651 substrate binding site [chemical binding]; other site 557760010652 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557760010653 AAA domain; Region: AAA_23; pfam13476 557760010654 Walker A/P-loop; other site 557760010655 ATP binding site [chemical binding]; other site 557760010656 Q-loop/lid; other site 557760010657 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557760010658 Walker B; other site 557760010659 D-loop; other site 557760010660 H-loop/switch region; other site 557760010661 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760010662 Uncharacterized conserved protein [Function unknown]; Region: COG4121 557760010663 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760010664 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 557760010665 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760010666 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760010667 catalytic residue [active] 557760010668 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557760010669 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557760010670 dimer interface [polypeptide binding]; other site 557760010671 active site 557760010672 catalytic residue [active] 557760010673 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 557760010674 SmpB-tmRNA interface; other site 557760010675 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 557760010676 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 557760010677 active site residue [active] 557760010678 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 557760010679 active site residue [active] 557760010680 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 557760010681 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 557760010682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760010683 homodimer interface [polypeptide binding]; other site 557760010684 catalytic residue [active] 557760010685 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 557760010686 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 557760010687 Nitrogen regulatory protein P-II; Region: P-II; smart00938 557760010688 Protein of unknown function (DUF2456); Region: DUF2456; pfam10445 557760010689 Transglycosylase; Region: Transgly; pfam00912 557760010690 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 557760010691 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557760010692 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 557760010693 VacJ like lipoprotein; Region: VacJ; cl01073 557760010694 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 557760010695 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 557760010696 Walker A/P-loop; other site 557760010697 ATP binding site [chemical binding]; other site 557760010698 Q-loop/lid; other site 557760010699 ABC transporter signature motif; other site 557760010700 Walker B; other site 557760010701 D-loop; other site 557760010702 H-loop/switch region; other site 557760010703 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557760010704 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760010705 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 557760010706 homotrimer interaction site [polypeptide binding]; other site 557760010707 putative active site [active] 557760010708 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 557760010709 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 557760010710 active site 557760010711 catalytic site [active] 557760010712 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 557760010713 Protein of unknown function, DUF482; Region: DUF482; pfam04339 557760010714 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760010715 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 557760010716 putative C-terminal domain interface [polypeptide binding]; other site 557760010717 putative GSH binding site (G-site) [chemical binding]; other site 557760010718 putative dimer interface [polypeptide binding]; other site 557760010719 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 557760010720 dimer interface [polypeptide binding]; other site 557760010721 N-terminal domain interface [polypeptide binding]; other site 557760010722 putative substrate binding pocket (H-site) [chemical binding]; other site 557760010723 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 557760010724 aromatic arch; other site 557760010725 DCoH dimer interaction site [polypeptide binding]; other site 557760010726 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 557760010727 DCoH tetramer interaction site [polypeptide binding]; other site 557760010728 substrate binding site [chemical binding]; other site 557760010729 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 557760010730 catalytic triad [active] 557760010731 dimer interface [polypeptide binding]; other site 557760010732 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 557760010733 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760010734 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 557760010735 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 557760010736 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557760010737 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 557760010738 motif II; other site 557760010739 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 557760010740 putative heme binding pocket [chemical binding]; other site 557760010741 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 557760010742 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 557760010743 metal binding site [ion binding]; metal-binding site 557760010744 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 557760010745 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557760010746 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557760010747 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 557760010748 ABC-ATPase subunit interface; other site 557760010749 dimer interface [polypeptide binding]; other site 557760010750 putative PBP binding regions; other site 557760010751 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557760010752 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 557760010753 ABC-ATPase subunit interface; other site 557760010754 dimer interface [polypeptide binding]; other site 557760010755 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 557760010756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760010757 active site 557760010758 phosphorylation site [posttranslational modification] 557760010759 intermolecular recognition site; other site 557760010760 dimerization interface [polypeptide binding]; other site 557760010761 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 557760010762 DNA binding residues [nucleotide binding] 557760010763 dimerization interface [polypeptide binding]; other site 557760010764 PAS domain S-box; Region: sensory_box; TIGR00229 557760010765 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760010766 putative active site [active] 557760010767 heme pocket [chemical binding]; other site 557760010768 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 557760010769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760010770 dimer interface [polypeptide binding]; other site 557760010771 phosphorylation site [posttranslational modification] 557760010772 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760010773 ATP binding site [chemical binding]; other site 557760010774 Mg2+ binding site [ion binding]; other site 557760010775 G-X-G motif; other site 557760010776 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760010777 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557760010778 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557760010779 DctM-like transporters; Region: DctM; pfam06808 557760010780 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 557760010781 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557760010782 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760010783 substrate binding site [chemical binding]; other site 557760010784 oxyanion hole (OAH) forming residues; other site 557760010785 trimer interface [polypeptide binding]; other site 557760010786 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 557760010787 classical (c) SDRs; Region: SDR_c; cd05233 557760010788 NAD(P) binding site [chemical binding]; other site 557760010789 active site 557760010790 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 557760010791 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 557760010792 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557760010793 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 557760010794 active site 557760010795 short chain dehydrogenase; Provisional; Region: PRK06701 557760010796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760010797 NAD(P) binding site [chemical binding]; other site 557760010798 active site 557760010799 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557760010800 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557760010801 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557760010802 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 557760010803 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 557760010804 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 557760010805 active site 557760010806 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 557760010807 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 557760010808 putative MPT binding site; other site 557760010809 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557760010810 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760010811 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760010812 ligand binding site [chemical binding]; other site 557760010813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760010814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760010815 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557760010816 putative effector binding pocket; other site 557760010817 dimerization interface [polypeptide binding]; other site 557760010818 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 557760010819 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 557760010820 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 557760010821 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 557760010822 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 557760010823 putative active site [active] 557760010824 Ap4A binding site [chemical binding]; other site 557760010825 nudix motif; other site 557760010826 putative metal binding site [ion binding]; other site 557760010827 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 557760010828 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 557760010829 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 557760010830 protein binding site [polypeptide binding]; other site 557760010831 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 557760010832 Catalytic dyad [active] 557760010833 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 557760010834 Peptidase family M23; Region: Peptidase_M23; pfam01551 557760010835 phosphoglyceromutase; Provisional; Region: PRK05434 557760010836 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 557760010837 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 557760010838 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557760010839 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 557760010840 FeS/SAM binding site; other site 557760010841 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 557760010842 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557760010843 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557760010844 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557760010845 Terminase small subunit; Region: Terminase_2; cl01513 557760010846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 557760010847 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 557760010848 Toprim domain; Region: Toprim_3; pfam13362 557760010849 active site 557760010850 metal binding site [ion binding]; metal-binding site 557760010851 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 557760010852 AAA domain; Region: AAA_22; pfam13401 557760010853 ATP binding site [chemical binding]; other site 557760010854 putative Mg++ binding site [ion binding]; other site 557760010855 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 557760010856 nucleotide binding region [chemical binding]; other site 557760010857 ATP-binding site [chemical binding]; other site 557760010858 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 557760010859 integrase; Provisional; Region: PRK09692 557760010860 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 557760010861 active site 557760010862 DNA binding site [nucleotide binding] 557760010863 Int/Topo IB signature motif; other site 557760010864 trehalose synthase; Region: treS_nterm; TIGR02456 557760010865 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 557760010866 active site 557760010867 catalytic site [active] 557760010868 Protein of unknown function DUF72; Region: DUF72; pfam01904 557760010869 NMT1/THI5 like; Region: NMT1; pfam09084 557760010870 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557760010871 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557760010872 Walker A/P-loop; other site 557760010873 ATP binding site [chemical binding]; other site 557760010874 Q-loop/lid; other site 557760010875 ABC transporter signature motif; other site 557760010876 Walker B; other site 557760010877 D-loop; other site 557760010878 H-loop/switch region; other site 557760010879 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557760010880 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 557760010881 dimer interface [polypeptide binding]; other site 557760010882 conserved gate region; other site 557760010883 putative PBP binding loops; other site 557760010884 ABC-ATPase subunit interface; other site 557760010885 aminotransferase; Validated; Region: PRK07678 557760010886 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 557760010887 inhibitor-cofactor binding pocket; inhibition site 557760010888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760010889 catalytic residue [active] 557760010890 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 557760010891 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 557760010892 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 557760010893 putative active site [active] 557760010894 putative substrate binding site [chemical binding]; other site 557760010895 putative cosubstrate binding site; other site 557760010896 catalytic site [active] 557760010897 Transmembrane secretion effector; Region: MFS_3; pfam05977 557760010898 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 557760010899 putative substrate translocation pore; other site 557760010900 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 557760010901 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 557760010902 active site 557760010903 DNA binding site [nucleotide binding] 557760010904 Int/Topo IB signature motif; other site 557760010905 catalytic residues [active] 557760010906 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 557760010907 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 557760010908 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 557760010909 active site 557760010910 homotetramer interface [polypeptide binding]; other site 557760010911 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 557760010912 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 557760010913 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 557760010914 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 557760010915 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557760010916 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 557760010917 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557760010918 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 557760010919 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 557760010920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 557760010921 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557760010922 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 557760010923 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557760010924 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 557760010925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 557760010926 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 557760010927 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 557760010928 active site 557760010929 metal binding site [ion binding]; metal-binding site 557760010930 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 557760010931 Protein of unknown function (DUF952); Region: DUF952; pfam06108 557760010932 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 557760010933 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 557760010934 quinone interaction residues [chemical binding]; other site 557760010935 active site 557760010936 catalytic residues [active] 557760010937 FMN binding site [chemical binding]; other site 557760010938 substrate binding site [chemical binding]; other site 557760010939 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760010940 AsnC family; Region: AsnC_trans_reg; pfam01037 557760010941 AAA domain; Region: AAA_30; pfam13604 557760010942 Family description; Region: UvrD_C_2; pfam13538 557760010943 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 557760010944 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 557760010945 NAD(P) binding site [chemical binding]; other site 557760010946 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 557760010947 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 557760010948 B12 binding site [chemical binding]; other site 557760010949 cobalt ligand [ion binding]; other site 557760010950 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 557760010951 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 557760010952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760010953 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557760010954 MAPEG family; Region: MAPEG; cl09190 557760010955 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 557760010956 E3 interaction surface; other site 557760010957 lipoyl attachment site [posttranslational modification]; other site 557760010958 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 557760010959 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 557760010960 E3 interaction surface; other site 557760010961 lipoyl attachment site [posttranslational modification]; other site 557760010962 e3 binding domain; Region: E3_binding; pfam02817 557760010963 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557760010964 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 557760010965 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 557760010966 TPP-binding site [chemical binding]; other site 557760010967 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 557760010968 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 557760010969 CoA binding domain; Region: CoA_binding; pfam02629 557760010970 CoA-ligase; Region: Ligase_CoA; pfam00549 557760010971 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 557760010972 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 557760010973 CoA-ligase; Region: Ligase_CoA; pfam00549 557760010974 malate dehydrogenase; Reviewed; Region: PRK06223 557760010975 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 557760010976 NAD(P) binding site [chemical binding]; other site 557760010977 dimer interface [polypeptide binding]; other site 557760010978 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557760010979 substrate binding site [chemical binding]; other site 557760010980 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557760010981 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 557760010982 NnrU protein; Region: NnrU; pfam07298 557760010983 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 557760010984 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 557760010985 putative active site [active] 557760010986 putative catalytic site [active] 557760010987 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 557760010988 putative active site [active] 557760010989 putative catalytic site [active] 557760010990 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 557760010991 Iron-sulfur protein interface; other site 557760010992 proximal quinone binding site [chemical binding]; other site 557760010993 SdhD (CybS) interface [polypeptide binding]; other site 557760010994 proximal heme binding site [chemical binding]; other site 557760010995 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 557760010996 putative SdhC subunit interface [polypeptide binding]; other site 557760010997 putative proximal heme binding site [chemical binding]; other site 557760010998 putative Iron-sulfur protein interface [polypeptide binding]; other site 557760010999 putative proximal quinone binding site; other site 557760011000 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 557760011001 L-aspartate oxidase; Provisional; Region: PRK06175 557760011002 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557760011003 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 557760011004 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 557760011005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760011006 DNA-binding site [nucleotide binding]; DNA binding site 557760011007 FCD domain; Region: FCD; pfam07729 557760011008 Protein of unknown function DUF45; Region: DUF45; pfam01863 557760011009 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 557760011010 TIGR02300 family protein; Region: FYDLN_acid 557760011011 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 557760011012 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 557760011013 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 557760011014 active site 557760011015 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 557760011016 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760011017 EamA-like transporter family; Region: EamA; pfam00892 557760011018 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 557760011019 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 557760011020 active site 557760011021 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760011022 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760011023 Walker A/P-loop; other site 557760011024 ATP binding site [chemical binding]; other site 557760011025 Q-loop/lid; other site 557760011026 ABC transporter signature motif; other site 557760011027 Walker B; other site 557760011028 D-loop; other site 557760011029 H-loop/switch region; other site 557760011030 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760011031 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760011032 TM-ABC transporter signature motif; other site 557760011033 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 557760011034 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557760011035 ligand binding site [chemical binding]; other site 557760011036 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557760011037 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557760011038 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 557760011039 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760011040 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 557760011041 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 557760011042 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 557760011043 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 557760011044 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 557760011045 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557760011046 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 557760011047 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 557760011048 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 557760011049 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 557760011050 transmembrane helices; other site 557760011051 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 557760011052 hypothetical protein; Validated; Region: PRK00228 557760011053 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 557760011054 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 557760011055 Fe-S cluster binding site [ion binding]; other site 557760011056 active site 557760011057 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 557760011058 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557760011059 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557760011060 dihydroorotase; Validated; Region: PRK09059 557760011061 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 557760011062 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 557760011063 active site 557760011064 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 557760011065 glutamate--cysteine ligase; Region: PLN02611 557760011066 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 557760011067 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 557760011068 UbiA prenyltransferase family; Region: UbiA; pfam01040 557760011069 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760011070 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760011071 ligand binding site [chemical binding]; other site 557760011072 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 557760011073 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 557760011074 succinic semialdehyde dehydrogenase; Region: PLN02278 557760011075 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 557760011076 tetramerization interface [polypeptide binding]; other site 557760011077 NAD(P) binding site [chemical binding]; other site 557760011078 catalytic residues [active] 557760011079 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557760011080 Domain of unknown function DUF21; Region: DUF21; pfam01595 557760011081 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 557760011082 Transporter associated domain; Region: CorC_HlyC; smart01091 557760011083 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760011084 von Willebrand factor; Region: vWF_A; pfam12450 557760011085 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 557760011086 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 557760011087 metal ion-dependent adhesion site (MIDAS); other site 557760011088 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 557760011089 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 557760011090 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 557760011091 putative dimer interface [polypeptide binding]; other site 557760011092 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 557760011093 active site 557760011094 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 557760011095 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 557760011096 Cysteine-rich domain; Region: CCG; pfam02754 557760011097 Cysteine-rich domain; Region: CCG; pfam02754 557760011098 FAD binding domain; Region: FAD_binding_4; pfam01565 557760011099 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 557760011100 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 557760011101 FAD binding domain; Region: FAD_binding_4; pfam01565 557760011102 Protein of unknown function, DUF599; Region: DUF599; pfam04654 557760011103 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 557760011104 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557760011105 conserved cys residue [active] 557760011106 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 557760011107 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 557760011108 Protein of unknown function DUF58; Region: DUF58; pfam01882 557760011109 MoxR-like ATPases [General function prediction only]; Region: COG0714 557760011110 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 557760011111 Walker A motif; other site 557760011112 ATP binding site [chemical binding]; other site 557760011113 Walker B motif; other site 557760011114 arginine finger; other site 557760011115 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 557760011116 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 557760011117 Zinc-finger domain; Region: zf-CHCC; pfam10276 557760011118 DNA polymerase I; Provisional; Region: PRK05755 557760011119 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 557760011120 active site 557760011121 metal binding site 1 [ion binding]; metal-binding site 557760011122 putative 5' ssDNA interaction site; other site 557760011123 metal binding site 3; metal-binding site 557760011124 metal binding site 2 [ion binding]; metal-binding site 557760011125 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 557760011126 putative DNA binding site [nucleotide binding]; other site 557760011127 putative metal binding site [ion binding]; other site 557760011128 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 557760011129 active site 557760011130 catalytic site [active] 557760011131 substrate binding site [chemical binding]; other site 557760011132 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 557760011133 active site 557760011134 DNA binding site [nucleotide binding] 557760011135 catalytic site [active] 557760011136 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 557760011137 nucleotide binding site/active site [active] 557760011138 HIT family signature motif; other site 557760011139 catalytic residue [active] 557760011140 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 557760011141 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760011142 substrate binding site [chemical binding]; other site 557760011143 ATP binding site [chemical binding]; other site 557760011144 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 557760011145 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557760011146 minor groove reading motif; other site 557760011147 helix-hairpin-helix signature motif; other site 557760011148 substrate binding pocket [chemical binding]; other site 557760011149 active site 557760011150 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 557760011151 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557760011152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760011153 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 557760011154 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 557760011155 DNA binding site [nucleotide binding] 557760011156 active site 557760011157 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760011158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760011159 ligand binding site [chemical binding]; other site 557760011160 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 557760011161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760011162 DNA-binding site [nucleotide binding]; DNA binding site 557760011163 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557760011164 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 557760011165 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 557760011166 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557760011167 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 557760011168 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 557760011169 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 557760011170 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 557760011171 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 557760011172 dimerization interface [polypeptide binding]; other site 557760011173 putative DNA binding site [nucleotide binding]; other site 557760011174 putative Zn2+ binding site [ion binding]; other site 557760011175 malonyl-CoA synthase; Validated; Region: PRK07514 557760011176 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 557760011177 acyl-activating enzyme (AAE) consensus motif; other site 557760011178 active site 557760011179 AMP binding site [chemical binding]; other site 557760011180 CoA binding site [chemical binding]; other site 557760011181 ATPase MipZ; Region: MipZ; pfam09140 557760011182 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 557760011183 P-loop; other site 557760011184 Magnesium ion binding site [ion binding]; other site 557760011185 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 557760011186 Magnesium ion binding site [ion binding]; other site 557760011187 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 557760011188 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 557760011189 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 557760011190 RimM N-terminal domain; Region: RimM; pfam01782 557760011191 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 557760011192 PRC-barrel domain; Region: PRC; pfam05239 557760011193 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 557760011194 chorismate mutase; Provisional; Region: PRK09239 557760011195 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557760011196 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557760011197 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557760011198 signal recognition particle protein; Provisional; Region: PRK10867 557760011199 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 557760011200 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 557760011201 P loop; other site 557760011202 GTP binding site [chemical binding]; other site 557760011203 Signal peptide binding domain; Region: SRP_SPB; pfam02978 557760011204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760011205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760011206 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557760011207 dimerization interface [polypeptide binding]; other site 557760011208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760011209 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 557760011210 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760011211 ATP binding site [chemical binding]; other site 557760011212 Mg2+ binding site [ion binding]; other site 557760011213 G-X-G motif; other site 557760011214 mercuric reductase; Validated; Region: PRK06370 557760011215 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760011216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760011217 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557760011218 Uncharacterized conserved protein [Function unknown]; Region: COG0398 557760011219 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557760011220 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 557760011221 Ribonuclease P; Region: Ribonuclease_P; pfam00825 557760011222 Haemolytic domain; Region: Haemolytic; pfam01809 557760011223 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 557760011224 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 557760011225 Ligand Binding Site [chemical binding]; other site 557760011226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557760011227 metal binding site [ion binding]; metal-binding site 557760011228 active site 557760011229 I-site; other site 557760011230 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 557760011231 membrane protein insertase; Provisional; Region: PRK01318 557760011232 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 557760011233 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 557760011234 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 557760011235 MOSC domain; Region: MOSC; pfam03473 557760011236 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 557760011237 G1 box; other site 557760011238 GTP/Mg2+ binding site [chemical binding]; other site 557760011239 Switch I region; other site 557760011240 G2 box; other site 557760011241 G3 box; other site 557760011242 Switch II region; other site 557760011243 G4 box; other site 557760011244 G5 box; other site 557760011245 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557760011246 classical (c) SDRs; Region: SDR_c; cd05233 557760011247 NAD(P) binding site [chemical binding]; other site 557760011248 active site 557760011249 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 557760011250 feedback inhibition sensing region; other site 557760011251 homohexameric interface [polypeptide binding]; other site 557760011252 nucleotide binding site [chemical binding]; other site 557760011253 N-acetyl-L-glutamate binding site [chemical binding]; other site 557760011254 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 557760011255 catalytic core [active] 557760011256 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 557760011257 MoaE homodimer interface [polypeptide binding]; other site 557760011258 MoaD interaction [polypeptide binding]; other site 557760011259 active site residues [active] 557760011260 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 557760011261 MoaE interaction surface [polypeptide binding]; other site 557760011262 MoeB interaction surface [polypeptide binding]; other site 557760011263 thiocarboxylated glycine; other site 557760011264 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557760011265 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 557760011266 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 557760011267 GIY-YIG motif/motif A; other site 557760011268 active site 557760011269 catalytic site [active] 557760011270 putative DNA binding site [nucleotide binding]; other site 557760011271 metal binding site [ion binding]; metal-binding site 557760011272 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 557760011273 short chain dehydrogenase; Provisional; Region: PRK09134 557760011274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760011275 NAD(P) binding site [chemical binding]; other site 557760011276 active site 557760011277 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 557760011278 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557760011279 tandem repeat interface [polypeptide binding]; other site 557760011280 oligomer interface [polypeptide binding]; other site 557760011281 active site residues [active] 557760011282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760011283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760011284 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 557760011285 dimerization interface [polypeptide binding]; other site 557760011286 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 557760011287 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 557760011288 putative dimer interface [polypeptide binding]; other site 557760011289 [2Fe-2S] cluster binding site [ion binding]; other site 557760011290 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 557760011291 putative dimer interface [polypeptide binding]; other site 557760011292 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 557760011293 SLBB domain; Region: SLBB; pfam10531 557760011294 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 557760011295 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 557760011296 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 557760011297 catalytic loop [active] 557760011298 iron binding site [ion binding]; other site 557760011299 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 557760011300 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 557760011301 [4Fe-4S] binding site [ion binding]; other site 557760011302 molybdopterin cofactor binding site; other site 557760011303 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 557760011304 molybdopterin cofactor binding site; other site 557760011305 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 557760011306 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 557760011307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760011308 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 557760011309 putative ADP-binding pocket [chemical binding]; other site 557760011310 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760011311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760011312 active site 557760011313 phosphorylation site [posttranslational modification] 557760011314 intermolecular recognition site; other site 557760011315 dimerization interface [polypeptide binding]; other site 557760011316 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 557760011317 DNA binding site [nucleotide binding] 557760011318 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 557760011319 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 557760011320 active site 557760011321 ligand binding site [chemical binding]; other site 557760011322 homodimer interface [polypeptide binding]; other site 557760011323 NAD(P) binding site [chemical binding]; other site 557760011324 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; pfam01262 557760011325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760011326 NAD(P) binding site [chemical binding]; other site 557760011327 active site 557760011328 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 557760011329 MFS/sugar transport protein; Region: MFS_2; pfam13347 557760011330 MFS/sugar transport protein; Region: MFS_2; pfam13347 557760011331 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 557760011332 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557760011333 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 557760011334 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 557760011335 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760011336 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 557760011337 DNA binding residues [nucleotide binding] 557760011338 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 557760011339 Putative zinc-finger; Region: zf-HC2; pfam13490 557760011340 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 557760011341 RmuC family; Region: RmuC; pfam02646 557760011342 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 557760011343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760011344 ATP binding site [chemical binding]; other site 557760011345 Mg2+ binding site [ion binding]; other site 557760011346 G-X-G motif; other site 557760011347 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 557760011348 ATP binding site [chemical binding]; other site 557760011349 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 557760011350 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557760011351 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557760011352 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557760011353 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557760011354 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557760011355 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 557760011356 lipoprotein signal peptidase; Provisional; Region: PRK14774 557760011357 lipoprotein signal peptidase; Provisional; Region: PRK14787 557760011358 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 557760011359 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 557760011360 purine monophosphate binding site [chemical binding]; other site 557760011361 dimer interface [polypeptide binding]; other site 557760011362 putative catalytic residues [active] 557760011363 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 557760011364 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 557760011365 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; cd00447 557760011366 putative RNA binding site [nucleotide binding]; other site 557760011367 16S rRNA methyltransferase B; Provisional; Region: PRK10901 557760011368 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 557760011369 S-adenosylmethionine binding site [chemical binding]; other site 557760011370 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 557760011371 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 557760011372 dihydrodipicolinate reductase; Provisional; Region: PRK00048 557760011373 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 557760011374 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 557760011375 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 557760011376 Predicted periplasmic protein [Function unknown]; Region: COG3698 557760011377 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 557760011378 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 557760011379 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 557760011380 RNA binding site [nucleotide binding]; other site 557760011381 active site 557760011382 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557760011383 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 557760011384 dimer interface [polypeptide binding]; other site 557760011385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760011386 catalytic residue [active] 557760011387 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 557760011388 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 557760011389 16S/18S rRNA binding site [nucleotide binding]; other site 557760011390 S13e-L30e interaction site [polypeptide binding]; other site 557760011391 25S rRNA binding site [nucleotide binding]; other site 557760011392 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 557760011393 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 557760011394 RNase E interface [polypeptide binding]; other site 557760011395 trimer interface [polypeptide binding]; other site 557760011396 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 557760011397 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 557760011398 RNase E interface [polypeptide binding]; other site 557760011399 trimer interface [polypeptide binding]; other site 557760011400 active site 557760011401 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 557760011402 putative nucleic acid binding region [nucleotide binding]; other site 557760011403 G-X-X-G motif; other site 557760011404 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 557760011405 RNA binding site [nucleotide binding]; other site 557760011406 domain interface; other site 557760011407 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557760011408 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760011409 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 557760011410 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760011411 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 557760011412 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 557760011413 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 557760011414 Walker A/P-loop; other site 557760011415 ATP binding site [chemical binding]; other site 557760011416 Q-loop/lid; other site 557760011417 ABC transporter signature motif; other site 557760011418 Walker B; other site 557760011419 D-loop; other site 557760011420 H-loop/switch region; other site 557760011421 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557760011422 HlyD family secretion protein; Region: HlyD_3; pfam13437 557760011423 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 557760011424 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 557760011425 trimer interface [polypeptide binding]; other site 557760011426 active site 557760011427 substrate binding site [chemical binding]; other site 557760011428 CoA binding site [chemical binding]; other site 557760011429 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 557760011430 putative active site [active] 557760011431 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 557760011432 putative PHP Thumb interface [polypeptide binding]; other site 557760011433 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 557760011434 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557760011435 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760011436 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760011437 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760011438 ribonuclease R; Region: RNase_R; TIGR02063 557760011439 RNB domain; Region: RNB; pfam00773 557760011440 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 557760011441 RNA binding site [nucleotide binding]; other site 557760011442 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557760011443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557760011444 Coenzyme A binding pocket [chemical binding]; other site 557760011445 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 557760011446 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 557760011447 metal binding site [ion binding]; metal-binding site 557760011448 dimer interface [polypeptide binding]; other site 557760011449 Predicted membrane protein [Function unknown]; Region: COG2323 557760011450 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 557760011451 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 557760011452 trimer interface [polypeptide binding]; other site 557760011453 active site 557760011454 substrate binding site [chemical binding]; other site 557760011455 CoA binding site [chemical binding]; other site 557760011456 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 557760011457 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 557760011458 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 557760011459 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 557760011460 TPP-binding site; other site 557760011461 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 557760011462 PYR/PP interface [polypeptide binding]; other site 557760011463 dimer interface [polypeptide binding]; other site 557760011464 TPP binding site [chemical binding]; other site 557760011465 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557760011466 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557760011467 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557760011468 substrate binding pocket [chemical binding]; other site 557760011469 chain length determination region; other site 557760011470 substrate-Mg2+ binding site; other site 557760011471 catalytic residues [active] 557760011472 aspartate-rich region 1; other site 557760011473 active site lid residues [active] 557760011474 aspartate-rich region 2; other site 557760011475 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 557760011476 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557760011477 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 557760011478 putative active site [active] 557760011479 Zn binding site [ion binding]; other site 557760011480 osmolarity response regulator; Provisional; Region: ompR; PRK09468 557760011481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760011482 active site 557760011483 phosphorylation site [posttranslational modification] 557760011484 intermolecular recognition site; other site 557760011485 dimerization interface [polypeptide binding]; other site 557760011486 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 557760011487 DNA binding site [nucleotide binding] 557760011488 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557760011489 MarR family; Region: MarR_2; pfam12802 557760011490 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557760011491 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 557760011492 homodimer interface [polypeptide binding]; other site 557760011493 substrate-cofactor binding pocket; other site 557760011494 catalytic residue [active] 557760011495 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 557760011496 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 557760011497 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 557760011498 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 557760011499 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557760011500 C-terminal domain interface [polypeptide binding]; other site 557760011501 GSH binding site (G-site) [chemical binding]; other site 557760011502 dimer interface [polypeptide binding]; other site 557760011503 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 557760011504 N-terminal domain interface [polypeptide binding]; other site 557760011505 dimer interface [polypeptide binding]; other site 557760011506 substrate binding pocket (H-site) [chemical binding]; other site 557760011507 Transglycosylase; Region: Transgly; cl17702 557760011508 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 557760011509 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 557760011510 active site 557760011511 dimer interface [polypeptide binding]; other site 557760011512 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 557760011513 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 557760011514 active site 557760011515 FMN binding site [chemical binding]; other site 557760011516 substrate binding site [chemical binding]; other site 557760011517 3Fe-4S cluster binding site [ion binding]; other site 557760011518 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 557760011519 domain interface; other site 557760011520 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 557760011521 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 557760011522 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760011523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760011524 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 557760011525 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 557760011526 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 557760011527 putative NAD(P) binding site [chemical binding]; other site 557760011528 active site 557760011529 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 557760011530 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 557760011531 catalytic site [active] 557760011532 putative active site [active] 557760011533 putative substrate binding site [chemical binding]; other site 557760011534 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 557760011535 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 557760011536 putative active site [active] 557760011537 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 557760011538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 557760011539 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 557760011540 OstA-like protein; Region: OstA; pfam03968 557760011541 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 557760011542 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 557760011543 Walker A/P-loop; other site 557760011544 ATP binding site [chemical binding]; other site 557760011545 Q-loop/lid; other site 557760011546 ABC transporter signature motif; other site 557760011547 Walker B; other site 557760011548 D-loop; other site 557760011549 H-loop/switch region; other site 557760011550 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 557760011551 30S subunit binding site; other site 557760011552 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 557760011553 active site 557760011554 phosphorylation site [posttranslational modification] 557760011555 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557760011556 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 557760011557 active site 557760011558 tetramer interface; other site 557760011559 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 557760011560 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 557760011561 active site 557760011562 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557760011563 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 557760011564 active site 557760011565 ribosome maturation protein RimP; Reviewed; Region: PRK00092 557760011566 Sm and related proteins; Region: Sm_like; cl00259 557760011567 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 557760011568 putative oligomer interface [polypeptide binding]; other site 557760011569 putative RNA binding site [nucleotide binding]; other site 557760011570 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 557760011571 NusA N-terminal domain; Region: NusA_N; pfam08529 557760011572 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 557760011573 RNA binding site [nucleotide binding]; other site 557760011574 homodimer interface [polypeptide binding]; other site 557760011575 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 557760011576 G-X-X-G motif; other site 557760011577 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 557760011578 G-X-X-G motif; other site 557760011579 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557760011580 hypothetical protein; Provisional; Region: PRK09190 557760011581 Protein of unknown function (DUF448); Region: DUF448; pfam04296 557760011582 putative RNA binding cleft [nucleotide binding]; other site 557760011583 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 557760011584 translation initiation factor IF-2; Region: IF-2; TIGR00487 557760011585 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557760011586 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 557760011587 G1 box; other site 557760011588 putative GEF interaction site [polypeptide binding]; other site 557760011589 GTP/Mg2+ binding site [chemical binding]; other site 557760011590 Switch I region; other site 557760011591 G2 box; other site 557760011592 G3 box; other site 557760011593 Switch II region; other site 557760011594 G4 box; other site 557760011595 G5 box; other site 557760011596 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 557760011597 Translation-initiation factor 2; Region: IF-2; pfam11987 557760011598 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 557760011599 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 557760011600 active site 557760011601 8-oxo-dGMP binding site [chemical binding]; other site 557760011602 nudix motif; other site 557760011603 metal binding site [ion binding]; metal-binding site 557760011604 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 557760011605 heterotetramer interface [polypeptide binding]; other site 557760011606 active site pocket [active] 557760011607 cleavage site 557760011608 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557760011609 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 557760011610 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 557760011611 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 557760011612 ATP binding site [chemical binding]; other site 557760011613 putative Mg++ binding site [ion binding]; other site 557760011614 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 557760011615 SEC-C motif; Region: SEC-C; pfam02810 557760011616 PBP superfamily domain; Region: PBP_like_2; cl17296 557760011617 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557760011618 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557760011619 ligand binding site [chemical binding]; other site 557760011620 hypothetical protein; Reviewed; Region: PRK00024 557760011621 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557760011622 MPN+ (JAMM) motif; other site 557760011623 Zinc-binding site [ion binding]; other site 557760011624 chaperone protein DnaJ; Provisional; Region: PRK10767 557760011625 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 557760011626 HSP70 interaction site [polypeptide binding]; other site 557760011627 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 557760011628 substrate binding site [polypeptide binding]; other site 557760011629 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 557760011630 Zn binding sites [ion binding]; other site 557760011631 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557760011632 dimer interface [polypeptide binding]; other site 557760011633 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 557760011634 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 557760011635 nucleotide binding site [chemical binding]; other site 557760011636 NEF interaction site [polypeptide binding]; other site 557760011637 SBD interface [polypeptide binding]; other site 557760011638 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 557760011639 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557760011640 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 557760011641 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 557760011642 S-adenosylmethionine binding site [chemical binding]; other site 557760011643 xylose isomerase; Provisional; Region: PRK05474 557760011644 xylose isomerase; Region: xylose_isom_A; TIGR02630 557760011645 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 557760011646 N- and C-terminal domain interface [polypeptide binding]; other site 557760011647 active site 557760011648 MgATP binding site [chemical binding]; other site 557760011649 catalytic site [active] 557760011650 metal binding site [ion binding]; metal-binding site 557760011651 xylulose binding site [chemical binding]; other site 557760011652 homodimer interface [polypeptide binding]; other site 557760011653 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 557760011654 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760011655 Walker A/P-loop; other site 557760011656 ATP binding site [chemical binding]; other site 557760011657 Q-loop/lid; other site 557760011658 ABC transporter signature motif; other site 557760011659 Walker B; other site 557760011660 D-loop; other site 557760011661 H-loop/switch region; other site 557760011662 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760011663 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 557760011664 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760011665 TM-ABC transporter signature motif; other site 557760011666 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 557760011667 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 557760011668 putative ligand binding site [chemical binding]; other site 557760011669 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 557760011670 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557760011671 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 557760011672 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557760011673 Surface antigen; Region: Bac_surface_Ag; pfam01103 557760011674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 557760011675 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 557760011676 Family of unknown function (DUF490); Region: DUF490; pfam04357 557760011677 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 557760011678 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 557760011679 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 557760011680 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 557760011681 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 557760011682 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 557760011683 NAD(P) binding site [chemical binding]; other site 557760011684 homodimer interface [polypeptide binding]; other site 557760011685 substrate binding site [chemical binding]; other site 557760011686 active site 557760011687 Bacterial sugar transferase; Region: Bac_transf; pfam02397 557760011688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760011689 active site 557760011690 MarR family; Region: MarR_2; pfam12802 557760011691 nitrilase; Region: PLN02798 557760011692 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 557760011693 putative active site [active] 557760011694 catalytic triad [active] 557760011695 dimer interface [polypeptide binding]; other site 557760011696 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 557760011697 GSH binding site [chemical binding]; other site 557760011698 catalytic residues [active] 557760011699 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 557760011700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 557760011701 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 557760011702 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 557760011703 ferrochelatase; Reviewed; Region: hemH; PRK00035 557760011704 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 557760011705 C-terminal domain interface [polypeptide binding]; other site 557760011706 active site 557760011707 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 557760011708 active site 557760011709 N-terminal domain interface [polypeptide binding]; other site 557760011710 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760011711 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 557760011712 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557760011713 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 557760011714 TRAM domain; Region: TRAM; cl01282 557760011715 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 557760011716 S-adenosylmethionine binding site [chemical binding]; other site 557760011717 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760011718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760011719 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557760011720 Walker A/P-loop; other site 557760011721 ATP binding site [chemical binding]; other site 557760011722 Q-loop/lid; other site 557760011723 ABC transporter signature motif; other site 557760011724 Walker B; other site 557760011725 D-loop; other site 557760011726 H-loop/switch region; other site 557760011727 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557760011728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557760011729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760011730 Walker A/P-loop; other site 557760011731 ATP binding site [chemical binding]; other site 557760011732 Q-loop/lid; other site 557760011733 ABC transporter signature motif; other site 557760011734 Walker B; other site 557760011735 D-loop; other site 557760011736 H-loop/switch region; other site 557760011737 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 557760011738 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557760011739 active site 557760011740 NTP binding site [chemical binding]; other site 557760011741 metal binding triad [ion binding]; metal-binding site 557760011742 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557760011743 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 557760011744 putative active site [active] 557760011745 putative CoA binding site [chemical binding]; other site 557760011746 nudix motif; other site 557760011747 metal binding site [ion binding]; metal-binding site 557760011748 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 557760011749 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 557760011750 dimerization interface [polypeptide binding]; other site 557760011751 domain crossover interface; other site 557760011752 redox-dependent activation switch; other site 557760011753 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 557760011754 nudix motif; other site 557760011755 Response regulator receiver domain; Region: Response_reg; pfam00072 557760011756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760011757 active site 557760011758 phosphorylation site [posttranslational modification] 557760011759 intermolecular recognition site; other site 557760011760 dimerization interface [polypeptide binding]; other site 557760011761 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 557760011762 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 557760011763 putative binding surface; other site 557760011764 active site 557760011765 threonine dehydratase; Validated; Region: PRK08639 557760011766 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 557760011767 tetramer interface [polypeptide binding]; other site 557760011768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760011769 catalytic residue [active] 557760011770 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 557760011771 argininosuccinate synthase; Provisional; Region: PRK13820 557760011772 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 557760011773 ANP binding site [chemical binding]; other site 557760011774 Substrate Binding Site II [chemical binding]; other site 557760011775 Substrate Binding Site I [chemical binding]; other site 557760011776 Protein of unknown function (DUF533); Region: DUF533; pfam04391 557760011777 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 557760011778 putative metal binding site [ion binding]; other site 557760011779 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557760011780 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 557760011781 homodimer interface [polypeptide binding]; other site 557760011782 substrate-cofactor binding pocket; other site 557760011783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760011784 catalytic residue [active] 557760011785 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557760011786 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 557760011787 substrate binding site [chemical binding]; other site 557760011788 dimer interface [polypeptide binding]; other site 557760011789 ATP binding site [chemical binding]; other site 557760011790 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 557760011791 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557760011792 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 557760011793 putative NAD(P) binding site [chemical binding]; other site 557760011794 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 557760011795 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 557760011796 MutS domain I; Region: MutS_I; pfam01624 557760011797 MutS domain II; Region: MutS_II; pfam05188 557760011798 MutS domain III; Region: MutS_III; pfam05192 557760011799 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 557760011800 Walker A/P-loop; other site 557760011801 ATP binding site [chemical binding]; other site 557760011802 Q-loop/lid; other site 557760011803 ABC transporter signature motif; other site 557760011804 Walker B; other site 557760011805 D-loop; other site 557760011806 H-loop/switch region; other site 557760011807 GrpE; Region: GrpE; pfam01025 557760011808 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 557760011809 dimer interface [polypeptide binding]; other site 557760011810 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 557760011811 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 557760011812 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 557760011813 ribonuclease PH; Reviewed; Region: rph; PRK00173 557760011814 Ribonuclease PH; Region: RNase_PH_bact; cd11362 557760011815 hexamer interface [polypeptide binding]; other site 557760011816 active site 557760011817 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 557760011818 active site 557760011819 dimerization interface [polypeptide binding]; other site 557760011820 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 557760011821 homotrimer interaction site [polypeptide binding]; other site 557760011822 putative active site [active] 557760011823 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 557760011824 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 557760011825 FeS/SAM binding site; other site 557760011826 HemN C-terminal domain; Region: HemN_C; pfam06969 557760011827 Protein of unknown function (DUF454); Region: DUF454; pfam04304 557760011828 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 557760011829 ParB-like nuclease domain; Region: ParBc; pfam02195 557760011830 KorB domain; Region: KorB; pfam08535 557760011831 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557760011832 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 557760011833 Magnesium ion binding site [ion binding]; other site 557760011834 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 557760011835 Magnesium ion binding site [ion binding]; other site 557760011836 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 557760011837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760011838 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 557760011839 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 557760011840 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 557760011841 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 557760011842 trmE is a tRNA modification GTPase; Region: trmE; cd04164 557760011843 G1 box; other site 557760011844 GTP/Mg2+ binding site [chemical binding]; other site 557760011845 Switch I region; other site 557760011846 G2 box; other site 557760011847 Switch II region; other site 557760011848 G3 box; other site 557760011849 G4 box; other site 557760011850 G5 box; other site 557760011851 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 557760011852 transcription termination factor Rho; Provisional; Region: rho; PRK09376 557760011853 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 557760011854 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 557760011855 RNA binding site [nucleotide binding]; other site 557760011856 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 557760011857 multimer interface [polypeptide binding]; other site 557760011858 Walker A motif; other site 557760011859 ATP binding site [chemical binding]; other site 557760011860 Walker B motif; other site 557760011861 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 557760011862 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 557760011863 active site 557760011864 dimer interface [polypeptide binding]; other site 557760011865 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 557760011866 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 557760011867 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 557760011868 shikimate binding site; other site 557760011869 NAD(P) binding site [chemical binding]; other site 557760011870 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 557760011871 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 557760011872 CoA-binding site [chemical binding]; other site 557760011873 ATP-binding [chemical binding]; other site 557760011874 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 557760011875 active site 557760011876 catalytic site [active] 557760011877 substrate binding site [chemical binding]; other site 557760011878 Preprotein translocase subunit SecB; Region: SecB; pfam02556 557760011879 SecA binding site; other site 557760011880 Preprotein binding site; other site 557760011881 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 557760011882 Tim44-like domain; Region: Tim44; pfam04280 557760011883 MltA specific insert domain; Region: MltA; smart00925 557760011884 3D domain; Region: 3D; pfam06725 557760011885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 557760011886 Smr domain; Region: Smr; pfam01713 557760011887 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_13; cd08354 557760011888 putative metal binding site [ion binding]; other site 557760011889 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760011890 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557760011891 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557760011892 DNA binding site [nucleotide binding] 557760011893 domain linker motif; other site 557760011894 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 557760011895 dimerization interface [polypeptide binding]; other site 557760011896 ligand binding site [chemical binding]; other site 557760011897 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 557760011898 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 557760011899 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557760011900 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557760011901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 557760011902 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 557760011903 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557760011904 Walker A/P-loop; other site 557760011905 ATP binding site [chemical binding]; other site 557760011906 Q-loop/lid; other site 557760011907 ABC transporter signature motif; other site 557760011908 Walker B; other site 557760011909 D-loop; other site 557760011910 H-loop/switch region; other site 557760011911 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557760011912 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760011913 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557760011914 TM-ABC transporter signature motif; other site 557760011915 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 557760011916 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 557760011917 putative ligand binding site [chemical binding]; other site 557760011918 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 557760011919 pseudoazurin; Region: pseudoazurin; TIGR02375 557760011920 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 557760011921 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 557760011922 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 557760011923 FMN binding site [chemical binding]; other site 557760011924 substrate binding site [chemical binding]; other site 557760011925 putative catalytic residue [active] 557760011926 propionate/acetate kinase; Provisional; Region: PRK12379 557760011927 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 557760011928 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 557760011929 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 557760011930 dimer interaction site [polypeptide binding]; other site 557760011931 substrate-binding tunnel; other site 557760011932 active site 557760011933 catalytic site [active] 557760011934 substrate binding site [chemical binding]; other site 557760011935 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 557760011936 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 557760011937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760011938 NAD(P) binding site [chemical binding]; other site 557760011939 active site 557760011940 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 557760011941 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 557760011942 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 557760011943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557760011944 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 557760011945 catalytic site [active] 557760011946 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 557760011947 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 557760011948 Sensors of blue-light using FAD; Region: BLUF; pfam04940 557760011949 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557760011950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760011951 active site 557760011952 phosphorylation site [posttranslational modification] 557760011953 intermolecular recognition site; other site 557760011954 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 557760011955 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 557760011956 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557760011957 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557760011958 K+-transporting ATPase, c chain; Region: KdpC; cl00944 557760011959 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 557760011960 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 557760011961 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 557760011962 Ligand Binding Site [chemical binding]; other site 557760011963 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 557760011964 GAF domain; Region: GAF_3; pfam13492 557760011965 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760011966 dimer interface [polypeptide binding]; other site 557760011967 phosphorylation site [posttranslational modification] 557760011968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760011969 ATP binding site [chemical binding]; other site 557760011970 Mg2+ binding site [ion binding]; other site 557760011971 G-X-G motif; other site 557760011972 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 557760011973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760011974 active site 557760011975 phosphorylation site [posttranslational modification] 557760011976 intermolecular recognition site; other site 557760011977 dimerization interface [polypeptide binding]; other site 557760011978 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 557760011979 DNA binding site [nucleotide binding] 557760011980 CsbD-like; Region: CsbD; cl17424 557760011981 HAMP domain; Region: HAMP; pfam00672 557760011982 dimerization interface [polypeptide binding]; other site 557760011983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557760011984 Histidine kinase; Region: HisKA_2; pfam07568 557760011985 RNA polymerase sigma factor; Provisional; Region: PRK12546 557760011986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557760011987 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 557760011988 DNA binding residues [nucleotide binding] 557760011989 two-component response regulator; Provisional; Region: PRK09191 557760011990 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 557760011991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760011992 active site 557760011993 phosphorylation site [posttranslational modification] 557760011994 intermolecular recognition site; other site 557760011995 dimerization interface [polypeptide binding]; other site 557760011996 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 557760011997 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557760011998 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 557760011999 ligand binding site [chemical binding]; other site 557760012000 flexible hinge region; other site 557760012001 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 557760012002 putative switch regulator; other site 557760012003 non-specific DNA interactions [nucleotide binding]; other site 557760012004 DNA binding site [nucleotide binding] 557760012005 sequence specific DNA binding site [nucleotide binding]; other site 557760012006 putative cAMP binding site [chemical binding]; other site 557760012007 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 557760012008 dimerization interface [polypeptide binding]; other site 557760012009 putative active cleft [active] 557760012010 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 557760012011 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 557760012012 motif II; other site 557760012013 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557760012014 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 557760012015 motif II; other site 557760012016 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 557760012017 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 557760012018 Walker A motif; other site 557760012019 ATP binding site [chemical binding]; other site 557760012020 Walker B motif; other site 557760012021 arginine finger; other site 557760012022 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 557760012023 multimerization interface [polypeptide binding]; other site 557760012024 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 557760012025 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 557760012026 homodimer interface [polypeptide binding]; other site 557760012027 active site 557760012028 heterodimer interface [polypeptide binding]; other site 557760012029 catalytic residue [active] 557760012030 metal binding site [ion binding]; metal-binding site 557760012031 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 557760012032 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 557760012033 intersubunit interface [polypeptide binding]; other site 557760012034 active site 557760012035 zinc binding site [ion binding]; other site 557760012036 Na+ binding site [ion binding]; other site 557760012037 phosphoribulokinase; Provisional; Region: PRK15453 557760012038 active site 557760012039 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 557760012040 AMP binding site [chemical binding]; other site 557760012041 metal binding site [ion binding]; metal-binding site 557760012042 active site 557760012043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557760012044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760012045 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 557760012046 dimerization interface [polypeptide binding]; other site 557760012047 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557760012048 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557760012049 Walker A/P-loop; other site 557760012050 ATP binding site [chemical binding]; other site 557760012051 Q-loop/lid; other site 557760012052 ABC transporter signature motif; other site 557760012053 Walker B; other site 557760012054 D-loop; other site 557760012055 H-loop/switch region; other site 557760012056 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 557760012057 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557760012058 Walker A/P-loop; other site 557760012059 ATP binding site [chemical binding]; other site 557760012060 Q-loop/lid; other site 557760012061 ABC transporter signature motif; other site 557760012062 Walker B; other site 557760012063 D-loop; other site 557760012064 H-loop/switch region; other site 557760012065 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557760012066 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 557760012067 TM-ABC transporter signature motif; other site 557760012068 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 557760012069 TM-ABC transporter signature motif; other site 557760012070 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557760012071 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 557760012072 ligand binding site [chemical binding]; other site 557760012073 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 557760012074 aldehyde dehydrogenase family 7 member; Region: PLN02315 557760012075 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 557760012076 tetrameric interface [polypeptide binding]; other site 557760012077 NAD binding site [chemical binding]; other site 557760012078 catalytic residues [active] 557760012079 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557760012080 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 557760012081 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 557760012082 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 557760012083 tetramer interface [polypeptide binding]; other site 557760012084 TPP-binding site [chemical binding]; other site 557760012085 heterodimer interface [polypeptide binding]; other site 557760012086 phosphorylation loop region [posttranslational modification] 557760012087 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557760012088 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 557760012089 alpha subunit interface [polypeptide binding]; other site 557760012090 TPP binding site [chemical binding]; other site 557760012091 heterodimer interface [polypeptide binding]; other site 557760012092 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557760012093 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 557760012094 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557760012095 FAD binding site [chemical binding]; other site 557760012096 substrate binding pocket [chemical binding]; other site 557760012097 catalytic base [active] 557760012098 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557760012099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557760012100 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 557760012101 dimerization interface [polypeptide binding]; other site 557760012102 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 557760012103 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 557760012104 active site 557760012105 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 557760012106 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 557760012107 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760012108 TPR motif; other site 557760012109 binding surface 557760012110 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760012111 TPR motif; other site 557760012112 PAP2 superfamily; Region: PAP2; pfam01569 557760012113 active site 557760012114 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 557760012115 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 557760012116 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 557760012117 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 557760012118 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 557760012119 ligand binding site [chemical binding]; other site 557760012120 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 557760012121 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760012122 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 557760012123 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760012124 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 557760012125 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 557760012126 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 557760012127 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 557760012128 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760012129 PAS domain; Region: PAS_9; pfam13426 557760012130 putative active site [active] 557760012131 heme pocket [chemical binding]; other site 557760012132 PAS domain; Region: PAS; smart00091 557760012133 PAS fold; Region: PAS_4; pfam08448 557760012134 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760012135 PAS domain; Region: PAS_9; pfam13426 557760012136 putative active site [active] 557760012137 heme pocket [chemical binding]; other site 557760012138 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760012139 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760012140 dimer interface [polypeptide binding]; other site 557760012141 phosphorylation site [posttranslational modification] 557760012142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760012143 ATP binding site [chemical binding]; other site 557760012144 Mg2+ binding site [ion binding]; other site 557760012145 G-X-G motif; other site 557760012146 Response regulator receiver domain; Region: Response_reg; pfam00072 557760012147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012148 active site 557760012149 phosphorylation site [posttranslational modification] 557760012150 intermolecular recognition site; other site 557760012151 dimerization interface [polypeptide binding]; other site 557760012152 Response regulator receiver domain; Region: Response_reg; pfam00072 557760012153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012154 active site 557760012155 phosphorylation site [posttranslational modification] 557760012156 intermolecular recognition site; other site 557760012157 dimerization interface [polypeptide binding]; other site 557760012158 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 557760012159 putative DNA binding helix; other site 557760012160 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 557760012161 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 557760012162 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 557760012163 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 557760012164 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 557760012165 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 557760012166 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 557760012167 Uncharacterized conserved protein [Function unknown]; Region: COG3334 557760012168 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 557760012169 flagellar motor protein MotA; Validated; Region: PRK09110 557760012170 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760012171 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760012172 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 557760012173 FHIPEP family; Region: FHIPEP; pfam00771 557760012174 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 557760012175 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 557760012176 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 557760012177 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 557760012178 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 557760012179 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 557760012180 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 557760012181 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 557760012182 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557760012183 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760012184 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 557760012185 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 557760012186 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 557760012187 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 557760012188 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 557760012189 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557760012190 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557760012191 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 557760012192 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 557760012193 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557760012194 Walker A motif; other site 557760012195 ATP binding site [chemical binding]; other site 557760012196 Walker B motif; other site 557760012197 Rod binding protein; Region: Rod-binding; cl01626 557760012198 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 557760012199 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 557760012200 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 557760012201 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 557760012202 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 557760012203 ABC1 family; Region: ABC1; cl17513 557760012204 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 557760012205 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 557760012206 S-adenosylmethionine binding site [chemical binding]; other site 557760012207 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 557760012208 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 557760012209 DNA binding site [nucleotide binding] 557760012210 catalytic residue [active] 557760012211 H2TH interface [polypeptide binding]; other site 557760012212 putative catalytic residues [active] 557760012213 turnover-facilitating residue; other site 557760012214 intercalation triad [nucleotide binding]; other site 557760012215 8OG recognition residue [nucleotide binding]; other site 557760012216 putative reading head residues; other site 557760012217 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 557760012218 enoyl-CoA hydratase; Provisional; Region: PRK05862 557760012219 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557760012220 substrate binding site [chemical binding]; other site 557760012221 oxyanion hole (OAH) forming residues; other site 557760012222 trimer interface [polypeptide binding]; other site 557760012223 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 557760012224 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 557760012225 DnaA N-terminal domain; Region: DnaA_N; pfam11638 557760012226 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 557760012227 Walker A motif; other site 557760012228 ATP binding site [chemical binding]; other site 557760012229 Walker B motif; other site 557760012230 arginine finger; other site 557760012231 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 557760012232 DnaA box-binding interface [nucleotide binding]; other site 557760012233 DNA polymerase III subunit beta; Validated; Region: PRK05643 557760012234 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 557760012235 putative DNA binding surface [nucleotide binding]; other site 557760012236 dimer interface [polypeptide binding]; other site 557760012237 beta-clamp/clamp loader binding surface; other site 557760012238 beta-clamp/translesion DNA polymerase binding surface; other site 557760012239 recombination protein F; Reviewed; Region: recF; PRK00064 557760012240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760012241 Walker A/P-loop; other site 557760012242 ATP binding site [chemical binding]; other site 557760012243 Q-loop/lid; other site 557760012244 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760012245 ABC transporter signature motif; other site 557760012246 Walker B; other site 557760012247 D-loop; other site 557760012248 H-loop/switch region; other site 557760012249 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557760012250 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 557760012251 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 557760012252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760012253 Mg2+ binding site [ion binding]; other site 557760012254 G-X-G motif; other site 557760012255 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 557760012256 anchoring element; other site 557760012257 dimer interface [polypeptide binding]; other site 557760012258 ATP binding site [chemical binding]; other site 557760012259 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 557760012260 active site 557760012261 putative metal-binding site [ion binding]; other site 557760012262 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557760012263 Predicted ATPase [General function prediction only]; Region: COG1485 557760012264 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557760012265 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557760012266 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 557760012267 motif II; other site 557760012268 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 557760012269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760012270 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557760012271 catalytic residue [active] 557760012272 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 557760012273 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 557760012274 ligand binding site [chemical binding]; other site 557760012275 NAD binding site [chemical binding]; other site 557760012276 dimerization interface [polypeptide binding]; other site 557760012277 catalytic site [active] 557760012278 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 557760012279 putative L-serine binding site [chemical binding]; other site 557760012280 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 557760012281 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557760012282 active site 557760012283 metal binding site [ion binding]; metal-binding site 557760012284 beta-ketothiolase; Provisional; Region: PRK09051 557760012285 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 557760012286 dimer interface [polypeptide binding]; other site 557760012287 active site 557760012288 Transglycosylase; Region: Transgly; pfam00912 557760012289 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 557760012290 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 557760012291 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 557760012292 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 557760012293 putative binding site; other site 557760012294 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 557760012295 MG2 domain; Region: A2M_N; pfam01835 557760012296 MG2 domain; Region: A2M_N; pfam01835 557760012297 Alpha-2-macroglobulin family; Region: A2M; pfam00207 557760012298 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 557760012299 surface patch; other site 557760012300 thioester region; other site 557760012301 specificity defining residues; other site 557760012302 PAS fold; Region: PAS_7; pfam12860 557760012303 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557760012304 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760012305 dimer interface [polypeptide binding]; other site 557760012306 phosphorylation site [posttranslational modification] 557760012307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760012308 ATP binding site [chemical binding]; other site 557760012309 Mg2+ binding site [ion binding]; other site 557760012310 G-X-G motif; other site 557760012311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012312 Response regulator receiver domain; Region: Response_reg; pfam00072 557760012313 active site 557760012314 phosphorylation site [posttranslational modification] 557760012315 intermolecular recognition site; other site 557760012316 dimerization interface [polypeptide binding]; other site 557760012317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012318 Response regulator receiver domain; Region: Response_reg; pfam00072 557760012319 active site 557760012320 phosphorylation site [posttranslational modification] 557760012321 intermolecular recognition site; other site 557760012322 dimerization interface [polypeptide binding]; other site 557760012323 Protein of unknown function (DUF328); Region: DUF328; pfam03883 557760012324 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 557760012325 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 557760012326 ATP binding site [chemical binding]; other site 557760012327 putative Mg++ binding site [ion binding]; other site 557760012328 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 557760012329 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 557760012330 active site residue [active] 557760012331 nucleotide binding region [chemical binding]; other site 557760012332 ATP-binding site [chemical binding]; other site 557760012333 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 557760012334 HRDC domain; Region: HRDC; pfam00570 557760012335 HRDC domain; Region: HRDC; pfam00570 557760012336 YGGT family; Region: YGGT; pfam02325 557760012337 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 557760012338 active site 557760012339 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 557760012340 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 557760012341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 557760012342 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 557760012343 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 557760012344 hypothetical protein; Provisional; Region: PRK09256 557760012345 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 557760012346 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 557760012347 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 557760012348 active site 557760012349 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 557760012350 Isochorismatase family; Region: Isochorismatase; pfam00857 557760012351 catalytic triad [active] 557760012352 metal binding site [ion binding]; metal-binding site 557760012353 conserved cis-peptide bond; other site 557760012354 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 557760012355 classical (c) SDRs; Region: SDR_c; cd05233 557760012356 NAD(P) binding site [chemical binding]; other site 557760012357 active site 557760012358 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 557760012359 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 557760012360 active site 557760012361 catalytic site [active] 557760012362 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 557760012363 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760012364 putative substrate translocation pore; other site 557760012365 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 557760012366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557760012367 putative substrate translocation pore; other site 557760012368 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557760012369 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 557760012370 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 557760012371 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 557760012372 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557760012373 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 557760012374 active site clefts [active] 557760012375 zinc binding site [ion binding]; other site 557760012376 dimer interface [polypeptide binding]; other site 557760012377 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 557760012378 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 557760012379 interface (dimer of trimers) [polypeptide binding]; other site 557760012380 Substrate-binding/catalytic site; other site 557760012381 Zn-binding sites [ion binding]; other site 557760012382 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557760012383 NlpC/P60 family; Region: NLPC_P60; pfam00877 557760012384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 557760012385 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 557760012386 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 557760012387 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 557760012388 L-asparaginase II; Region: Asparaginase_II; pfam06089 557760012389 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 557760012390 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557760012391 putative NAD(P) binding site [chemical binding]; other site 557760012392 AMP nucleosidase; Provisional; Region: PRK08292 557760012393 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 557760012394 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 557760012395 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 557760012396 IHF dimer interface [polypeptide binding]; other site 557760012397 IHF - DNA interface [nucleotide binding]; other site 557760012398 EamA-like transporter family; Region: EamA; pfam00892 557760012399 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 557760012400 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 557760012401 Tetramer interface [polypeptide binding]; other site 557760012402 active site 557760012403 FMN-binding site [chemical binding]; other site 557760012404 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 557760012405 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 557760012406 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 557760012407 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 557760012408 dimer interface [polypeptide binding]; other site 557760012409 conserved gate region; other site 557760012410 putative PBP binding loops; other site 557760012411 ABC-ATPase subunit interface; other site 557760012412 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 557760012413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557760012414 Walker A/P-loop; other site 557760012415 ATP binding site [chemical binding]; other site 557760012416 Q-loop/lid; other site 557760012417 ABC transporter signature motif; other site 557760012418 Walker B; other site 557760012419 D-loop; other site 557760012420 H-loop/switch region; other site 557760012421 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 557760012422 cytochrome b; Provisional; Region: CYTB; MTH00119 557760012423 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 557760012424 intrachain domain interface; other site 557760012425 interchain domain interface [polypeptide binding]; other site 557760012426 heme bH binding site [chemical binding]; other site 557760012427 Qi binding site; other site 557760012428 heme bL binding site [chemical binding]; other site 557760012429 Qo binding site; other site 557760012430 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 557760012431 interchain domain interface [polypeptide binding]; other site 557760012432 intrachain domain interface; other site 557760012433 Qi binding site; other site 557760012434 Qo binding site; other site 557760012435 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 557760012436 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 557760012437 [2Fe-2S] cluster binding site [ion binding]; other site 557760012438 putative glutathione S-transferase; Provisional; Region: PRK10357 557760012439 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557760012440 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 557760012441 dimer interface [polypeptide binding]; other site 557760012442 N-terminal domain interface [polypeptide binding]; other site 557760012443 putative substrate binding pocket (H-site) [chemical binding]; other site 557760012444 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 557760012445 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 557760012446 DNA polymerase IV; Provisional; Region: PRK02794 557760012447 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 557760012448 active site 557760012449 DNA binding site [nucleotide binding] 557760012450 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557760012451 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 557760012452 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 557760012453 active site 557760012454 dimer interface [polypeptide binding]; other site 557760012455 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557760012456 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557760012457 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 557760012458 Clp amino terminal domain; Region: Clp_N; pfam02861 557760012459 Clp amino terminal domain; Region: Clp_N; pfam02861 557760012460 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 557760012461 Walker A motif; other site 557760012462 ATP binding site [chemical binding]; other site 557760012463 Walker B motif; other site 557760012464 arginine finger; other site 557760012465 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 557760012466 Walker A motif; other site 557760012467 ATP binding site [chemical binding]; other site 557760012468 Walker B motif; other site 557760012469 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557760012470 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 557760012471 Fasciclin domain; Region: Fasciclin; pfam02469 557760012472 TMAO/DMSO reductase; Reviewed; Region: PRK05363 557760012473 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 557760012474 Moco binding site; other site 557760012475 metal coordination site [ion binding]; other site 557760012476 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 557760012477 putative transposase OrfB; Reviewed; Region: PHA02517 557760012478 HTH-like domain; Region: HTH_21; pfam13276 557760012479 Integrase core domain; Region: rve; pfam00665 557760012480 Integrase core domain; Region: rve_3; pfam13683 557760012481 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 557760012482 potential frameshift: common BLAST hit: gi|158424483|ref|YP_001525775.1| transcriptional regulator 557760012483 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557760012484 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557760012485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557760012486 Uncharacterized conserved protein [Function unknown]; Region: COG1262 557760012487 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 557760012488 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 557760012489 Sulfatase; Region: Sulfatase; pfam00884 557760012490 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 557760012491 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 557760012492 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557760012493 Walker A/P-loop; other site 557760012494 ATP binding site [chemical binding]; other site 557760012495 Q-loop/lid; other site 557760012496 ABC transporter signature motif; other site 557760012497 Walker B; other site 557760012498 D-loop; other site 557760012499 H-loop/switch region; other site 557760012500 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557760012501 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 557760012502 ABC-ATPase subunit interface; other site 557760012503 dimer interface [polypeptide binding]; other site 557760012504 putative PBP binding regions; other site 557760012505 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557760012506 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557760012507 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 557760012508 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557760012509 siderophore binding site; other site 557760012510 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 557760012511 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557760012512 N-terminal plug; other site 557760012513 ligand-binding site [chemical binding]; other site 557760012514 Transcriptional regulators [Transcription]; Region: MarR; COG1846 557760012515 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 557760012516 putative DNA binding site [nucleotide binding]; other site 557760012517 putative Zn2+ binding site [ion binding]; other site 557760012518 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557760012519 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557760012520 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557760012521 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557760012522 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557760012523 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 557760012524 dimer interface [polypeptide binding]; other site 557760012525 conserved gate region; other site 557760012526 putative PBP binding loops; other site 557760012527 ABC-ATPase subunit interface; other site 557760012528 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557760012529 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 557760012530 dimer interface [polypeptide binding]; other site 557760012531 conserved gate region; other site 557760012532 putative PBP binding loops; other site 557760012533 ABC-ATPase subunit interface; other site 557760012534 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 557760012535 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557760012536 Walker A/P-loop; other site 557760012537 ATP binding site [chemical binding]; other site 557760012538 Q-loop/lid; other site 557760012539 ABC transporter signature motif; other site 557760012540 Walker B; other site 557760012541 D-loop; other site 557760012542 H-loop/switch region; other site 557760012543 TOBE domain; Region: TOBE_2; pfam08402 557760012544 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 557760012545 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 557760012546 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 557760012547 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 557760012548 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 557760012549 tetramer interface [polypeptide binding]; other site 557760012550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760012551 catalytic residue [active] 557760012552 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557760012553 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 557760012554 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557760012555 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557760012556 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 557760012557 active site 557760012558 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 557760012559 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557760012560 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557760012561 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 557760012562 dimer interface [polypeptide binding]; other site 557760012563 conserved gate region; other site 557760012564 putative PBP binding loops; other site 557760012565 ABC-ATPase subunit interface; other site 557760012566 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 557760012567 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 557760012568 dimer interface [polypeptide binding]; other site 557760012569 conserved gate region; other site 557760012570 putative PBP binding loops; other site 557760012571 ABC-ATPase subunit interface; other site 557760012572 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557760012573 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760012574 Walker A/P-loop; other site 557760012575 ATP binding site [chemical binding]; other site 557760012576 Q-loop/lid; other site 557760012577 ABC transporter signature motif; other site 557760012578 Walker B; other site 557760012579 D-loop; other site 557760012580 H-loop/switch region; other site 557760012581 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760012582 Walker A/P-loop; other site 557760012583 ATP binding site [chemical binding]; other site 557760012584 Q-loop/lid; other site 557760012585 ABC transporter signature motif; other site 557760012586 Walker B; other site 557760012587 D-loop; other site 557760012588 H-loop/switch region; other site 557760012589 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760012590 allantoate amidohydrolase; Reviewed; Region: PRK09290 557760012591 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 557760012592 active site 557760012593 metal binding site [ion binding]; metal-binding site 557760012594 dimer interface [polypeptide binding]; other site 557760012595 Phosphotransferase enzyme family; Region: APH; pfam01636 557760012596 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 557760012597 active site 557760012598 ATP binding site [chemical binding]; other site 557760012599 substrate binding site [chemical binding]; other site 557760012600 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 557760012601 Phosphotransferase enzyme family; Region: APH; pfam01636 557760012602 active site 557760012603 ATP binding site [chemical binding]; other site 557760012604 substrate binding site [chemical binding]; other site 557760012605 dimer interface [polypeptide binding]; other site 557760012606 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557760012607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760012608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760012609 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760012610 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760012611 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 557760012612 homotrimer interaction site [polypeptide binding]; other site 557760012613 putative active site [active] 557760012614 DNA Polymerase Y-family; Region: PolY_like; cd03468 557760012615 active site 557760012616 DNA binding site [nucleotide binding] 557760012617 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 557760012618 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 557760012619 putative metal binding site [ion binding]; other site 557760012620 Uncharacterized conserved protein [Function unknown]; Region: COG1432 557760012621 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 557760012622 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 557760012623 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 557760012624 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 557760012625 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557760012626 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557760012627 Thioredoxin; Region: Thioredoxin_4; pfam13462 557760012628 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 557760012629 Protein of unknown function (DUF721); Region: DUF721; pfam05258 557760012630 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 557760012631 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557760012632 minor groove reading motif; other site 557760012633 helix-hairpin-helix signature motif; other site 557760012634 substrate binding pocket [chemical binding]; other site 557760012635 active site 557760012636 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 557760012637 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 557760012638 DNA binding and oxoG recognition site [nucleotide binding] 557760012639 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 557760012640 Di-iron ligands [ion binding]; other site 557760012641 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557760012642 DNA methylase; Region: N6_N4_Mtase; pfam01555 557760012643 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 557760012644 RNA/DNA hybrid binding site [nucleotide binding]; other site 557760012645 active site 557760012646 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 557760012647 DNA binding site [nucleotide binding] 557760012648 peptide-modifying radical SAM enzyme CbpB; Region: rSAM_cobopep; TIGR04163 557760012649 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 557760012650 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 557760012651 dimer interface [polypeptide binding]; other site 557760012652 active site 557760012653 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557760012654 catalytic residues [active] 557760012655 substrate binding site [chemical binding]; other site 557760012656 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 557760012657 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 557760012658 NAD(P) binding pocket [chemical binding]; other site 557760012659 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 557760012660 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557760012661 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557760012662 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 557760012663 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760012664 Walker A/P-loop; other site 557760012665 ATP binding site [chemical binding]; other site 557760012666 Q-loop/lid; other site 557760012667 ABC transporter signature motif; other site 557760012668 Walker B; other site 557760012669 D-loop; other site 557760012670 H-loop/switch region; other site 557760012671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 557760012672 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557760012673 Walker A/P-loop; other site 557760012674 ATP binding site [chemical binding]; other site 557760012675 Q-loop/lid; other site 557760012676 ABC transporter signature motif; other site 557760012677 Walker B; other site 557760012678 D-loop; other site 557760012679 H-loop/switch region; other site 557760012680 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557760012681 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 557760012682 dimer interface [polypeptide binding]; other site 557760012683 conserved gate region; other site 557760012684 ABC-ATPase subunit interface; other site 557760012685 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 557760012686 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 557760012687 dimer interface [polypeptide binding]; other site 557760012688 conserved gate region; other site 557760012689 putative PBP binding loops; other site 557760012690 ABC-ATPase subunit interface; other site 557760012691 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557760012692 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 557760012693 peptide binding site [polypeptide binding]; other site 557760012694 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 557760012695 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 557760012696 ATP binding site [chemical binding]; other site 557760012697 Mg++ binding site [ion binding]; other site 557760012698 motif III; other site 557760012699 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 557760012700 nucleotide binding region [chemical binding]; other site 557760012701 ATP-binding site [chemical binding]; other site 557760012702 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 557760012703 RNA binding site [nucleotide binding]; other site 557760012704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557760012705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557760012706 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 557760012707 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 557760012708 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 557760012709 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 557760012710 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 557760012711 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 557760012712 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 557760012713 Uncharacterized conserved protein [Function unknown]; Region: COG2835 557760012714 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557760012715 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 557760012716 hypothetical protein; Provisional; Region: PRK06102 557760012717 Amidase; Region: Amidase; cl11426 557760012718 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 557760012719 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 557760012720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760012721 homodimer interface [polypeptide binding]; other site 557760012722 catalytic residue [active] 557760012723 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 557760012724 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 557760012725 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 557760012726 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 557760012727 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 557760012728 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 557760012729 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557760012730 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557760012731 catalytic residue [active] 557760012732 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 557760012733 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 557760012734 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 557760012735 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 557760012736 Histidine kinase-like ATPases; This family includes several ATP-binding 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 557760012737 ATP binding site [chemical binding]; other site 557760012738 Mg2+ binding site [ion binding]; other site 557760012739 G-X-G motif; other site 557760012740 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 557760012741 anti sigma factor interaction site; other site 557760012742 regulatory phosphorylation site [posttranslational modification]; other site 557760012743 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 557760012744 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557760012745 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557760012746 active site 557760012747 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557760012748 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 557760012749 active site 557760012750 metal binding site [ion binding]; metal-binding site 557760012751 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 557760012752 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557760012753 NAD binding site [chemical binding]; other site 557760012754 catalytic residues [active] 557760012755 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 557760012756 HemY protein N-terminus; Region: HemY_N; pfam07219 557760012757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 557760012758 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 557760012759 active site 557760012760 UGMP family protein; Validated; Region: PRK09604 557760012761 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557760012762 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 557760012763 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557760012764 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 557760012765 YciI-like protein; Reviewed; Region: PRK12863 557760012766 EVE domain; Region: EVE; cl00728 557760012767 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 557760012768 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 557760012769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557760012770 catalytic residue [active] 557760012771 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 557760012772 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 557760012773 homotetramer interface [polypeptide binding]; other site 557760012774 ligand binding site [chemical binding]; other site 557760012775 catalytic site [active] 557760012776 NAD binding site [chemical binding]; other site 557760012777 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 557760012778 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 557760012779 Ligand binding site; other site 557760012780 metal-binding site 557760012781 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 557760012782 K-box region; Region: K-box; pfam01486 557760012783 H-NS histone family; Region: Histone_HNS; pfam00816 557760012784 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 557760012785 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 557760012786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012787 active site 557760012788 phosphorylation site [posttranslational modification] 557760012789 intermolecular recognition site; other site 557760012790 dimerization interface [polypeptide binding]; other site 557760012791 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 557760012792 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 557760012793 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 557760012794 Cu(I) binding site [ion binding]; other site 557760012795 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760012796 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760012797 dimer interface [polypeptide binding]; other site 557760012798 phosphorylation site [posttranslational modification] 557760012799 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760012800 ATP binding site [chemical binding]; other site 557760012801 Mg2+ binding site [ion binding]; other site 557760012802 G-X-G motif; other site 557760012803 PAS fold; Region: PAS_7; pfam12860 557760012804 PAS fold; Region: PAS_7; pfam12860 557760012805 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 557760012806 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557760012807 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 557760012808 Phosphotransferase enzyme family; Region: APH; pfam01636 557760012809 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 557760012810 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 557760012811 Substrate binding site; other site 557760012812 metal-binding site 557760012813 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 557760012814 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 557760012815 Part of AAA domain; Region: AAA_19; pfam13245 557760012816 Family description; Region: UvrD_C_2; pfam13538 557760012817 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 557760012818 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 557760012819 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557760012820 catalytic residues [active] 557760012821 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 557760012822 active site 557760012823 HslU subunit interaction site [polypeptide binding]; other site 557760012824 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 557760012825 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 557760012826 Walker A motif; other site 557760012827 ATP binding site [chemical binding]; other site 557760012828 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 557760012829 Walker B motif; other site 557760012830 arginine finger; other site 557760012831 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557760012832 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 557760012833 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 557760012834 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 557760012835 Acid Phosphatase; Region: Acid_PPase; cl17256 557760012836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557760012837 active site 557760012838 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 557760012839 active site 2 [active] 557760012840 active site 1 [active] 557760012841 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 557760012842 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 557760012843 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 557760012844 substrate binding site; other site 557760012845 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 557760012846 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 557760012847 active site 557760012848 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 557760012849 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557760012850 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557760012851 Walker A/P-loop; other site 557760012852 ATP binding site [chemical binding]; other site 557760012853 Q-loop/lid; other site 557760012854 ABC transporter signature motif; other site 557760012855 Walker B; other site 557760012856 D-loop; other site 557760012857 H-loop/switch region; other site 557760012858 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 557760012859 Imelysin; Region: Peptidase_M75; pfam09375 557760012860 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 557760012861 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 557760012862 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557760012863 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 557760012864 heme binding site [chemical binding]; other site 557760012865 ferroxidase pore; other site 557760012866 ferroxidase diiron center [ion binding]; other site 557760012867 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557760012868 Imelysin; Region: Peptidase_M75; cl09159 557760012869 Hemin uptake protein hemP; Region: hemP; pfam10636 557760012870 Protein of unknown function (DUF533); Region: DUF533; pfam04391 557760012871 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 557760012872 putative metal binding site [ion binding]; other site 557760012873 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 557760012874 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557760012875 Bacterial transcriptional regulator; Region: IclR; pfam01614 557760012876 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_19; cd07262 557760012877 ureidoglycolate hydrolase; Provisional; Region: PRK03606 557760012878 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 557760012879 hypothetical protein; Provisional; Region: PRK11171 557760012880 Cupin domain; Region: Cupin_2; pfam07883 557760012881 Cupin domain; Region: Cupin_2; pfam07883 557760012882 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 557760012883 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 557760012884 active site 557760012885 catalytic site [active] 557760012886 tetramer interface [polypeptide binding]; other site 557760012887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 557760012888 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 557760012889 active site 557760012890 homotetramer interface [polypeptide binding]; other site 557760012891 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 557760012892 isocitrate dehydrogenase; Validated; Region: PRK08299 557760012893 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 557760012894 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557760012895 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557760012896 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 557760012897 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557760012898 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 557760012899 acyl-activating enzyme (AAE) consensus motif; other site 557760012900 acyl-activating enzyme (AAE) consensus motif; other site 557760012901 putative AMP binding site [chemical binding]; other site 557760012902 putative active site [active] 557760012903 putative CoA binding site [chemical binding]; other site 557760012904 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 557760012905 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557760012906 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 557760012907 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 557760012908 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557760012909 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557760012910 Sensors of blue-light using FAD; Region: BLUF; smart01034 557760012911 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 557760012912 active site 557760012913 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 557760012914 putative active site [active] 557760012915 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557760012916 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 557760012917 putative active site [active] 557760012918 heme pocket [chemical binding]; other site 557760012919 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760012920 dimer interface [polypeptide binding]; other site 557760012921 phosphorylation site [posttranslational modification] 557760012922 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760012923 ATP binding site [chemical binding]; other site 557760012924 Mg2+ binding site [ion binding]; other site 557760012925 G-X-G motif; other site 557760012926 Response regulator receiver domain; Region: Response_reg; pfam00072 557760012927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012928 active site 557760012929 phosphorylation site [posttranslational modification] 557760012930 intermolecular recognition site; other site 557760012931 dimerization interface [polypeptide binding]; other site 557760012932 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557760012933 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557760012934 aminotransferase; Validated; Region: PRK07046 557760012935 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 557760012936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557760012937 catalytic residue [active] 557760012938 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 557760012939 ATP-grasp domain; Region: ATP-grasp; pfam02222 557760012940 AIR carboxylase; Region: AIRC; pfam00731 557760012941 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 557760012942 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 557760012943 putative dimer interface [polypeptide binding]; other site 557760012944 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 557760012945 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 557760012946 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 557760012947 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 557760012948 ATP-sulfurylase; Region: ATPS; cd00517 557760012949 active site 557760012950 HXXH motif; other site 557760012951 flexible loop; other site 557760012952 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 557760012953 ligand-binding site [chemical binding]; other site 557760012954 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 557760012955 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557760012956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557760012957 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557760012958 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 557760012959 putative DNA binding site [nucleotide binding]; other site 557760012960 putative Zn2+ binding site [ion binding]; other site 557760012961 AsnC family; Region: AsnC_trans_reg; pfam01037 557760012962 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 557760012963 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 557760012964 Uncharacterized conserved protein [Function unknown]; Region: COG1565 557760012965 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 557760012966 Membrane fusogenic activity; Region: BMFP; pfam04380 557760012967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012968 Response regulator receiver domain; Region: Response_reg; pfam00072 557760012969 active site 557760012970 phosphorylation site [posttranslational modification] 557760012971 intermolecular recognition site; other site 557760012972 dimerization interface [polypeptide binding]; other site 557760012973 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 557760012974 putative binding surface; other site 557760012975 active site 557760012976 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 557760012977 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557760012978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760012979 ATP binding site [chemical binding]; other site 557760012980 Mg2+ binding site [ion binding]; other site 557760012981 G-X-G motif; other site 557760012982 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 557760012983 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 557760012984 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 557760012985 putative CheA interaction surface; other site 557760012986 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 557760012987 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557760012988 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 557760012989 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 557760012990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012991 active site 557760012992 phosphorylation site [posttranslational modification] 557760012993 intermolecular recognition site; other site 557760012994 dimerization interface [polypeptide binding]; other site 557760012995 CheB methylesterase; Region: CheB_methylest; pfam01339 557760012996 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557760012997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760012998 active site 557760012999 phosphorylation site [posttranslational modification] 557760013000 intermolecular recognition site; other site 557760013001 dimerization interface [polypeptide binding]; other site 557760013002 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 557760013003 Walker A motif; other site 557760013004 ATP binding site [chemical binding]; other site 557760013005 Walker B motif; other site 557760013006 arginine finger; other site 557760013007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557760013008 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 557760013009 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 557760013010 acyl-activating enzyme (AAE) consensus motif; other site 557760013011 putative AMP binding site [chemical binding]; other site 557760013012 putative active site [active] 557760013013 putative CoA binding site [chemical binding]; other site 557760013014 malic enzyme; Reviewed; Region: PRK12862 557760013015 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557760013016 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 557760013017 putative NAD(P) binding site [chemical binding]; other site 557760013018 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 557760013019 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 557760013020 active site 557760013021 catalytic motif [active] 557760013022 Zn binding site [ion binding]; other site 557760013023 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 557760013024 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557760013025 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557760013026 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 557760013027 phosphopentomutase; Provisional; Region: PRK05362 557760013028 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 557760013029 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 557760013030 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 557760013031 active site 557760013032 purine riboside binding site [chemical binding]; other site 557760013033 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557760013034 active site 557760013035 Sporulation related domain; Region: SPOR; pfam05036 557760013036 acyl-CoA synthetase; Validated; Region: PRK08162 557760013037 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 557760013038 acyl-activating enzyme (AAE) consensus motif; other site 557760013039 putative active site [active] 557760013040 AMP binding site [chemical binding]; other site 557760013041 putative CoA binding site [chemical binding]; other site 557760013042 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557760013043 EamA-like transporter family; Region: EamA; pfam00892 557760013044 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 557760013045 DctM-like transporters; Region: DctM; pfam06808 557760013046 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557760013047 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557760013048 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557760013049 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 557760013050 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557760013051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760013052 DNA-binding site [nucleotide binding]; DNA binding site 557760013053 FCD domain; Region: FCD; pfam07729 557760013054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557760013055 DNA-binding site [nucleotide binding]; DNA binding site 557760013056 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557760013057 FCD domain; Region: FCD; pfam07729 557760013058 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 557760013059 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557760013060 putative NAD(P) binding site [chemical binding]; other site 557760013061 catalytic Zn binding site [ion binding]; other site 557760013062 structural Zn binding site [ion binding]; other site 557760013063 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 557760013064 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 557760013065 galactarate dehydratase; Region: galactar-dH20; TIGR03248 557760013066 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 557760013067 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 557760013068 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760013069 ATP binding site [chemical binding]; other site 557760013070 Mg2+ binding site [ion binding]; other site 557760013071 G-X-G motif; other site 557760013072 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557760013073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760013074 active site 557760013075 phosphorylation site [posttranslational modification] 557760013076 intermolecular recognition site; other site 557760013077 dimerization interface [polypeptide binding]; other site 557760013078 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 557760013079 Walker A motif; other site 557760013080 ATP binding site [chemical binding]; other site 557760013081 Walker B motif; other site 557760013082 arginine finger; other site 557760013083 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 557760013084 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557760013085 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 557760013086 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 557760013087 DctM-like transporters; Region: DctM; pfam06808 557760013088 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 557760013089 potential frameshift: common BLAST hit: gi|119382825|ref|YP_913881.1| transposase IS66 557760013090 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760013091 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557760013092 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557760013093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760013094 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557760013095 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557760013096 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557760013097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557760013098 Transposase; Region: HTH_Tnp_1; pfam01527 557760013099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557760013100 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557760013101 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 557760013102 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 557760013103 potential frameshift: common BLAST hit: gi|77462177|ref|YP_351681.1| lambda family phage tail tape measure protein 557760013104 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 557760013105 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 557760013106 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557760013107 Phage capsid family; Region: Phage_capsid; pfam05065 557760013108 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557760013109 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 557760013110 tandem repeat interface [polypeptide binding]; other site 557760013111 oligomer interface [polypeptide binding]; other site 557760013112 active site residues [active] 557760013113 Phage-related protein [Function unknown]; Region: COG4695; cl01923 557760013114 Phage portal protein; Region: Phage_portal; pfam04860 557760013115 Phage Terminase; Region: Terminase_1; pfam03354 557760013116 Phage terminase, small subunit; Region: Terminase_4; pfam05119 557760013117 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 557760013118 active site 557760013119 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 557760013120 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 557760013121 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557760013122 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 557760013123 non-specific DNA binding site [nucleotide binding]; other site 557760013124 salt bridge; other site 557760013125 sequence-specific DNA binding site [nucleotide binding]; other site 557760013126 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 557760013127 Catalytic site [active] 557760013128 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 557760013129 ParB-like nuclease domain; Region: ParB; smart00470 557760013130 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557760013131 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 557760013132 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 557760013133 active site 557760013134 catalytic residues [active] 557760013135 DNA binding site [nucleotide binding] 557760013136 Int/Topo IB signature motif; other site 557760013137 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557760013138 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557760013139 DNA binding site [nucleotide binding] 557760013140 domain linker motif; other site 557760013141 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 557760013142 putative dimerization interface [polypeptide binding]; other site 557760013143 putative ligand binding site [chemical binding]; other site 557760013144 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 557760013145 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557760013146 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 557760013147 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 557760013148 Uncharacterized conserved protein [Function unknown]; Region: COG1432 557760013149 LabA_like proteins; Region: LabA; cd10911 557760013150 putative metal binding site [ion binding]; other site 557760013151 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; cl00233 557760013152 catalytic center binding site [active] 557760013153 ATP binding site [chemical binding]; other site 557760013154 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 557760013155 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557760013156 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557760013157 Zn2+ binding site [ion binding]; other site 557760013158 Mg2+ binding site [ion binding]; other site 557760013159 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557760013160 synthetase active site [active] 557760013161 NTP binding site [chemical binding]; other site 557760013162 metal binding site [ion binding]; metal-binding site 557760013163 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 557760013164 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557760013165 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 557760013166 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 557760013167 active site 557760013168 hydrophilic channel; other site 557760013169 dimerization interface [polypeptide binding]; other site 557760013170 catalytic residues [active] 557760013171 active site lid [active] 557760013172 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 557760013173 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 557760013174 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 557760013175 Catalytic site [active] 557760013176 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 557760013177 ribonuclease III; Reviewed; Region: rnc; PRK00102 557760013178 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 557760013179 dimerization interface [polypeptide binding]; other site 557760013180 active site 557760013181 metal binding site [ion binding]; metal-binding site 557760013182 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 557760013183 dsRNA binding site [nucleotide binding]; other site 557760013184 GTPase Era; Reviewed; Region: era; PRK00089 557760013185 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 557760013186 G1 box; other site 557760013187 GTP/Mg2+ binding site [chemical binding]; other site 557760013188 Switch I region; other site 557760013189 G2 box; other site 557760013190 Switch II region; other site 557760013191 G3 box; other site 557760013192 G4 box; other site 557760013193 G5 box; other site 557760013194 KH domain; Region: KH_2; pfam07650 557760013195 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 557760013196 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 557760013197 Recombination protein O N terminal; Region: RecO_N; pfam11967 557760013198 Recombination protein O C terminal; Region: RecO_C; pfam02565 557760013199 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557760013200 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557760013201 active site 557760013202 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 557760013203 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 557760013204 active site 557760013205 substrate-binding site [chemical binding]; other site 557760013206 metal-binding site [ion binding] 557760013207 ATP binding site [chemical binding]; other site 557760013208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557760013209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557760013210 active site 557760013211 phosphorylation site [posttranslational modification] 557760013212 intermolecular recognition site; other site 557760013213 dimerization interface [polypeptide binding]; other site 557760013214 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 557760013215 DNA binding site [nucleotide binding] 557760013216 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 557760013217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557760013218 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 557760013219 dimer interface [polypeptide binding]; other site 557760013220 phosphorylation site [posttranslational modification] 557760013221 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557760013222 ATP binding site [chemical binding]; other site 557760013223 Mg2+ binding site [ion binding]; other site 557760013224 G-X-G motif; other site 557760013225 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 557760013226 Hpr binding site; other site 557760013227 active site 557760013228 homohexamer subunit interaction site [polypeptide binding]; other site 557760013229 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 557760013230 AAA domain; Region: AAA_18; pfam13238 557760013231 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 557760013232 active pocket/dimerization site; other site 557760013233 active site 557760013234 phosphorylation site [posttranslational modification] 557760013235 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 557760013236 dimerization domain swap beta strand [polypeptide binding]; other site 557760013237 regulatory protein interface [polypeptide binding]; other site 557760013238 active site 557760013239 regulatory phosphorylation site [posttranslational modification]; other site 557760013240 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557760013241 nuclear protein UL24; Provisional; Region: PHA03219 557760013242 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 557760013243 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 557760013244 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 557760013245 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 557760013246 Ligand binding site [chemical binding]; other site 557760013247 Electron transfer flavoprotein domain; Region: ETF; pfam01012 557760013248 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 557760013249 short chain dehydrogenase; Provisional; Region: PRK05993 557760013250 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 557760013251 NADP binding site [chemical binding]; other site 557760013252 active site 557760013253 steroid binding site; other site 557760013254 Bacterial SH3 domain; Region: SH3_3; pfam08239 557760013255 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 557760013256 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 557760013257 CAP-like domain; other site 557760013258 active site 557760013259 primary dimer interface [polypeptide binding]; other site 557760013260 elongation factor Tu; Reviewed; Region: PRK00049 557760013261 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557760013262 G1 box; other site 557760013263 GEF interaction site [polypeptide binding]; other site 557760013264 GTP/Mg2+ binding site [chemical binding]; other site 557760013265 Switch I region; other site 557760013266 G2 box; other site 557760013267 G3 box; other site 557760013268 Switch II region; other site 557760013269 G4 box; other site 557760013270 G5 box; other site 557760013271 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 557760013272 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 557760013273 Antibiotic Binding Site [chemical binding]; other site 557760013274 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 557760013275 trimer interface [polypeptide binding]; other site 557760013276 active site 557760013277 substrate binding site [chemical binding]; other site 557760013278 CoA binding site [chemical binding]; other site 557760013279 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597