-- dump date 20140620_041702 -- class Genbank::misc_feature -- table misc_feature_note -- id note 983917000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 983917000002 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 983917000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 983917000004 Walker A motif; other site 983917000005 ATP binding site [chemical binding]; other site 983917000006 Walker B motif; other site 983917000007 arginine finger; other site 983917000008 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 983917000009 DnaA box-binding interface [nucleotide binding]; other site 983917000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 983917000011 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 983917000012 putative DNA binding surface [nucleotide binding]; other site 983917000013 dimer interface [polypeptide binding]; other site 983917000014 beta-clamp/clamp loader binding surface; other site 983917000015 beta-clamp/translesion DNA polymerase binding surface; other site 983917000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 983917000017 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917000018 ATP binding site [chemical binding]; other site 983917000019 Mg2+ binding site [ion binding]; other site 983917000020 G-X-G motif; other site 983917000021 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 983917000022 anchoring element; other site 983917000023 dimer interface [polypeptide binding]; other site 983917000024 ATP binding site [chemical binding]; other site 983917000025 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 983917000026 active site 983917000027 putative metal-binding site [ion binding]; other site 983917000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 983917000029 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 983917000030 putative uracil binding site [chemical binding]; other site 983917000031 putative active site [active] 983917000032 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 983917000033 putative metal binding site [ion binding]; other site 983917000034 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 983917000035 potential frameshift: common BLAST hit: gi|302875148|ref|YP_003843781.1| TIR protein 983917000036 TIR domain; Region: TIR_2; pfam13676 983917000037 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 983917000038 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 983917000039 non-specific DNA binding site [nucleotide binding]; other site 983917000040 salt bridge; other site 983917000041 sequence-specific DNA binding site [nucleotide binding]; other site 983917000042 HipA N-terminal domain; Region: Couple_hipA; pfam13657 983917000043 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 983917000044 HipA-like N-terminal domain; Region: HipA_N; pfam07805 983917000045 HipA-like C-terminal domain; Region: HipA_C; pfam07804 983917000046 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 983917000047 Ligand Binding Site [chemical binding]; other site 983917000048 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917000049 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 983917000050 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917000051 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917000052 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917000053 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 983917000054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917000055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917000056 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_3; cd08472 983917000057 putative effector binding pocket; other site 983917000058 putative dimerization interface [polypeptide binding]; other site 983917000059 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 983917000060 PGAP1-like protein; Region: PGAP1; pfam07819 983917000061 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 983917000062 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 983917000063 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 983917000064 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 983917000065 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 983917000066 MOFRL family; Region: MOFRL; pfam05161 983917000067 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983917000068 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983917000069 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983917000070 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 983917000071 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 983917000072 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 983917000073 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 983917000074 Peptidase family M1; Region: Peptidase_M1; pfam01433 983917000075 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 983917000076 Zn binding site [ion binding]; other site 983917000077 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 983917000078 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917000079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917000080 metal binding site [ion binding]; metal-binding site 983917000081 active site 983917000082 I-site; other site 983917000083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917000084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917000085 metal binding site [ion binding]; metal-binding site 983917000086 active site 983917000087 I-site; other site 983917000088 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983917000089 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 983917000090 putative hydrophobic ligand binding site [chemical binding]; other site 983917000091 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 983917000092 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 983917000093 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917000094 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 983917000095 putative active site [active] 983917000096 putative catalytic site [active] 983917000097 NnrU protein; Region: NnrU; pfam07298 983917000098 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 983917000099 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917000100 substrate binding pocket [chemical binding]; other site 983917000101 membrane-bound complex binding site; other site 983917000102 hinge residues; other site 983917000103 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 983917000104 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 983917000105 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 983917000106 CreA protein; Region: CreA; pfam05981 983917000107 Pirin-related protein [General function prediction only]; Region: COG1741 983917000108 Pirin; Region: Pirin; pfam02678 983917000109 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 983917000110 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 983917000111 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 983917000112 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 983917000113 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 983917000114 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 983917000115 Domain of unknown function (DUF427); Region: DUF427; pfam04248 983917000116 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983917000117 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 983917000118 TPR motif; other site 983917000119 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917000120 binding surface 983917000121 TPR motif; other site 983917000122 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917000123 TPR motif; other site 983917000124 binding surface 983917000125 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917000126 TPR motif; other site 983917000127 binding surface 983917000128 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 983917000129 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 983917000130 catalytic residues [active] 983917000131 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 983917000132 GSH binding site [chemical binding]; other site 983917000133 catalytic residues [active] 983917000134 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917000135 TAP-like protein; Region: Abhydrolase_4; pfam08386 983917000136 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983917000137 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 983917000138 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917000139 Walker A/P-loop; other site 983917000140 ATP binding site [chemical binding]; other site 983917000141 Q-loop/lid; other site 983917000142 ABC transporter signature motif; other site 983917000143 Walker B; other site 983917000144 D-loop; other site 983917000145 H-loop/switch region; other site 983917000146 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 983917000147 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 983917000148 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 983917000149 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917000150 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 983917000151 ligand binding site [chemical binding]; other site 983917000152 flexible hinge region; other site 983917000153 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 983917000154 non-specific DNA interactions [nucleotide binding]; other site 983917000155 DNA binding site [nucleotide binding] 983917000156 sequence specific DNA binding site [nucleotide binding]; other site 983917000157 putative cAMP binding site [chemical binding]; other site 983917000158 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 983917000159 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 983917000160 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 983917000161 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 983917000162 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 983917000163 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 983917000164 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 983917000165 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 983917000166 P-loop; other site 983917000167 Magnesium ion binding site [ion binding]; other site 983917000168 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 983917000169 Magnesium ion binding site [ion binding]; other site 983917000170 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917000171 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 983917000172 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 983917000173 Serine hydrolase; Region: Ser_hydrolase; pfam06821 983917000174 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 983917000175 ParB-like nuclease domain; Region: ParBc; pfam02195 983917000176 PrkA family serine protein kinase; Provisional; Region: PRK15455 983917000177 AAA ATPase domain; Region: AAA_16; pfam13191 983917000178 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 983917000179 hypothetical protein; Provisional; Region: PRK05325 983917000180 SpoVR family protein; Provisional; Region: PRK11767 983917000181 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 983917000182 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 983917000183 FAD binding domain; Region: FAD_binding_4; pfam01565 983917000184 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 983917000185 EF-hand domain pair; Region: EF_hand_5; pfam13499 983917000186 Ca2+ binding site [ion binding]; other site 983917000187 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 983917000188 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 983917000189 threonine dehydratase; Provisional; Region: PRK07334 983917000190 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 983917000191 tetramer interface [polypeptide binding]; other site 983917000192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917000193 catalytic residue [active] 983917000194 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 983917000195 protease TldD; Provisional; Region: tldD; PRK10735 983917000196 Predicted methyltransferases [General function prediction only]; Region: COG0313 983917000197 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 983917000198 putative SAM binding site [chemical binding]; other site 983917000199 putative homodimer interface [polypeptide binding]; other site 983917000200 hypothetical protein; Provisional; Region: PRK14673 983917000201 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 983917000202 outer membrane lipoprotein; Provisional; Region: PRK11023 983917000203 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 983917000204 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 983917000205 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 983917000206 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 983917000207 Walker A motif; other site 983917000208 ATP binding site [chemical binding]; other site 983917000209 Walker B motif; other site 983917000210 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 983917000211 ligand binding site [chemical binding]; other site 983917000212 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 983917000213 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 983917000214 Walker A motif; other site 983917000215 ATP binding site [chemical binding]; other site 983917000216 Walker B motif; other site 983917000217 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 983917000218 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983917000219 catalytic residue [active] 983917000220 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 983917000221 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 983917000222 putative DNA binding site [nucleotide binding]; other site 983917000223 putative Zn2+ binding site [ion binding]; other site 983917000224 AsnC family; Region: AsnC_trans_reg; pfam01037 983917000225 Proline dehydrogenase; Region: Pro_dh; pfam01619 983917000226 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 983917000227 Glutamate binding site [chemical binding]; other site 983917000228 NAD binding site [chemical binding]; other site 983917000229 catalytic residues [active] 983917000230 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 983917000231 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917000232 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917000233 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917000234 ligand binding site [chemical binding]; other site 983917000235 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 983917000236 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 983917000237 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 983917000238 NAD(P) binding site [chemical binding]; other site 983917000239 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 983917000240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917000241 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 983917000242 dimerization interface [polypeptide binding]; other site 983917000243 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917000244 PAS domain; Region: PAS_9; pfam13426 983917000245 putative active site [active] 983917000246 heme pocket [chemical binding]; other site 983917000247 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917000248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917000249 dimer interface [polypeptide binding]; other site 983917000250 putative CheW interface [polypeptide binding]; other site 983917000251 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 983917000252 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 983917000253 dimerization interface [polypeptide binding]; other site 983917000254 DPS ferroxidase diiron center [ion binding]; other site 983917000255 ion pore; other site 983917000256 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 983917000257 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 983917000258 G1 box; other site 983917000259 putative GEF interaction site [polypeptide binding]; other site 983917000260 GTP/Mg2+ binding site [chemical binding]; other site 983917000261 Switch I region; other site 983917000262 G2 box; other site 983917000263 G3 box; other site 983917000264 Switch II region; other site 983917000265 G4 box; other site 983917000266 G5 box; other site 983917000267 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 983917000268 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; cl17321 983917000269 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 983917000270 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 983917000271 Fe-S cluster binding site [ion binding]; other site 983917000272 active site 983917000273 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 983917000274 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 983917000275 FeS/SAM binding site; other site 983917000276 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 983917000277 UbiA prenyltransferase family; Region: UbiA; pfam01040 983917000278 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 983917000279 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 983917000280 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 983917000281 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 983917000282 generic binding surface II; other site 983917000283 ssDNA binding site; other site 983917000284 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 983917000285 ATP binding site [chemical binding]; other site 983917000286 putative Mg++ binding site [ion binding]; other site 983917000287 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 983917000288 nucleotide binding region [chemical binding]; other site 983917000289 ATP-binding site [chemical binding]; other site 983917000290 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 983917000291 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 983917000292 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 983917000293 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 983917000294 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 983917000295 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 983917000296 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 983917000297 FMN binding site [chemical binding]; other site 983917000298 active site 983917000299 substrate binding site [chemical binding]; other site 983917000300 catalytic residue [active] 983917000301 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 983917000302 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 983917000303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 983917000304 MOSC domain; Region: MOSC; pfam03473 983917000305 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 983917000306 active site 983917000307 substrate-binding site [chemical binding]; other site 983917000308 metal-binding site [ion binding] 983917000309 GTP binding site [chemical binding]; other site 983917000310 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983917000311 active site 983917000312 metal binding site [ion binding]; metal-binding site 983917000313 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 983917000314 Ligand Binding Site [chemical binding]; other site 983917000315 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917000316 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917000317 putative chaperone; Provisional; Region: PRK11678 983917000318 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 983917000319 nucleotide binding site [chemical binding]; other site 983917000320 putative NEF/HSP70 interaction site [polypeptide binding]; other site 983917000321 SBD interface [polypeptide binding]; other site 983917000322 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 983917000323 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 983917000324 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 983917000325 tetrameric interface [polypeptide binding]; other site 983917000326 NAD binding site [chemical binding]; other site 983917000327 catalytic residues [active] 983917000328 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917000329 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917000330 metal binding site [ion binding]; metal-binding site 983917000331 active site 983917000332 I-site; other site 983917000333 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 983917000334 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 983917000335 dimer interface [polypeptide binding]; other site 983917000336 conserved gate region; other site 983917000337 putative PBP binding loops; other site 983917000338 ABC-ATPase subunit interface; other site 983917000339 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 983917000340 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 983917000341 Walker A/P-loop; other site 983917000342 ATP binding site [chemical binding]; other site 983917000343 Q-loop/lid; other site 983917000344 ABC transporter signature motif; other site 983917000345 Walker B; other site 983917000346 D-loop; other site 983917000347 H-loop/switch region; other site 983917000348 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 983917000349 NMT1-like family; Region: NMT1_2; pfam13379 983917000350 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 983917000351 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 983917000352 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983917000353 CHAT domain; Region: CHAT; pfam12770 983917000354 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 983917000355 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 983917000356 Sporulation related domain; Region: SPOR; cl10051 983917000357 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 983917000358 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 983917000359 Coenzyme A transferase; Region: CoA_trans; cl17247 983917000360 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 983917000361 Cupin domain; Region: Cupin_2; pfam07883 983917000362 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 983917000363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917000364 NAD(P) binding site [chemical binding]; other site 983917000365 active site 983917000366 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 983917000367 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 983917000368 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917000369 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 983917000370 ligand binding site [chemical binding]; other site 983917000371 flexible hinge region; other site 983917000372 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 983917000373 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 983917000374 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 983917000375 homodimer interface [polypeptide binding]; other site 983917000376 ligand binding site [chemical binding]; other site 983917000377 NAD(P) binding site [chemical binding]; other site 983917000378 trimer interface B [polypeptide binding]; other site 983917000379 trimer interface A [polypeptide binding]; other site 983917000380 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 983917000381 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 983917000382 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 983917000383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917000384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917000385 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 983917000386 putative dimerization interface [polypeptide binding]; other site 983917000387 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 983917000388 Citrate transporter; Region: CitMHS; pfam03600 983917000389 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 983917000390 Coenzyme A transferase; Region: CoA_trans; cl17247 983917000391 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 983917000392 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 983917000393 (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 983917000394 dimer interaction site [polypeptide binding]; other site 983917000395 substrate-binding tunnel; other site 983917000396 active site 983917000397 catalytic site [active] 983917000398 substrate binding site [chemical binding]; other site 983917000399 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 983917000400 propionate/acetate kinase; Provisional; Region: PRK12379 983917000401 Acetokinase family; Region: Acetate_kinase; cl17229 983917000402 beta-ketothiolase; Provisional; Region: PRK09051 983917000403 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 983917000404 dimer interface [polypeptide binding]; other site 983917000405 active site 983917000406 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 983917000407 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 983917000408 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 983917000409 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 983917000410 putative substrate translocation pore; other site 983917000411 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 983917000412 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 983917000413 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 983917000414 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 983917000415 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 983917000416 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 983917000417 putative substrate translocation pore; other site 983917000418 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 983917000419 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 983917000420 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 983917000421 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 983917000422 SnoaL-like domain; Region: SnoaL_3; pfam13474 983917000423 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 983917000424 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 983917000425 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 983917000426 putative active site [active] 983917000427 putative substrate binding site [chemical binding]; other site 983917000428 putative cosubstrate binding site; other site 983917000429 catalytic site [active] 983917000430 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 983917000431 dimerization interface [polypeptide binding]; other site 983917000432 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917000433 dimer interface [polypeptide binding]; other site 983917000434 phosphorylation site [posttranslational modification] 983917000435 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917000436 ATP binding site [chemical binding]; other site 983917000437 Mg2+ binding site [ion binding]; other site 983917000438 G-X-G motif; other site 983917000439 Response regulator receiver domain; Region: Response_reg; pfam00072 983917000440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917000441 active site 983917000442 phosphorylation site [posttranslational modification] 983917000443 intermolecular recognition site; other site 983917000444 dimerization interface [polypeptide binding]; other site 983917000445 Response regulator receiver domain; Region: Response_reg; pfam00072 983917000446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917000447 active site 983917000448 phosphorylation site [posttranslational modification] 983917000449 intermolecular recognition site; other site 983917000450 dimerization interface [polypeptide binding]; other site 983917000451 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917000452 putative active site [active] 983917000453 PAS fold; Region: PAS_3; pfam08447 983917000454 heme pocket [chemical binding]; other site 983917000455 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917000456 PAS domain; Region: PAS_9; pfam13426 983917000457 putative active site [active] 983917000458 heme pocket [chemical binding]; other site 983917000459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917000460 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917000461 dimer interface [polypeptide binding]; other site 983917000462 phosphorylation site [posttranslational modification] 983917000463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917000464 ATP binding site [chemical binding]; other site 983917000465 Mg2+ binding site [ion binding]; other site 983917000466 G-X-G motif; other site 983917000467 Zinc-finger domain; Region: zf-CHCC; cl01821 983917000468 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 983917000469 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 983917000470 homodimer interface [polypeptide binding]; other site 983917000471 substrate-cofactor binding pocket; other site 983917000472 catalytic residue [active] 983917000473 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 983917000474 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983917000475 active site 983917000476 metal binding site [ion binding]; metal-binding site 983917000477 DNA repair protein RadA; Provisional; Region: PRK11823 983917000478 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 983917000479 Walker A motif/ATP binding site; other site 983917000480 ATP binding site [chemical binding]; other site 983917000481 Walker B motif; other site 983917000482 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 983917000483 hypothetical protein; Provisional; Region: PRK09256 983917000484 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 983917000485 alanine racemase; Reviewed; Region: dadX; PRK03646 983917000486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 983917000487 active site 983917000488 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983917000489 substrate binding site [chemical binding]; other site 983917000490 catalytic residues [active] 983917000491 dimer interface [polypeptide binding]; other site 983917000492 lysophospholipid transporter LplT; Provisional; Region: PRK11195 983917000493 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 983917000494 putative substrate translocation pore; other site 983917000495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917000496 Response regulator receiver domain; Region: Response_reg; pfam00072 983917000497 active site 983917000498 phosphorylation site [posttranslational modification] 983917000499 intermolecular recognition site; other site 983917000500 dimerization interface [polypeptide binding]; other site 983917000501 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 983917000502 catalytic residues [active] 983917000503 dimer interface [polypeptide binding]; other site 983917000504 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 983917000505 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 983917000506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917000507 homodimer interface [polypeptide binding]; other site 983917000508 catalytic residue [active] 983917000509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917000510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917000511 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 983917000512 substrate binding pocket [chemical binding]; other site 983917000513 dimerization interface [polypeptide binding]; other site 983917000514 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 983917000515 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 983917000516 dimer interface [polypeptide binding]; other site 983917000517 conserved gate region; other site 983917000518 putative PBP binding loops; other site 983917000519 ABC-ATPase subunit interface; other site 983917000520 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 983917000521 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 983917000522 dimer interface [polypeptide binding]; other site 983917000523 conserved gate region; other site 983917000524 putative PBP binding loops; other site 983917000525 ABC-ATPase subunit interface; other site 983917000526 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 983917000527 putative active site [active] 983917000528 putative metal binding residues [ion binding]; other site 983917000529 signature motif; other site 983917000530 putative triphosphate binding site [ion binding]; other site 983917000531 dimer interface [polypeptide binding]; other site 983917000532 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 983917000533 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 983917000534 trimer interface [polypeptide binding]; other site 983917000535 eyelet of channel; other site 983917000536 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 983917000537 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917000538 Walker A/P-loop; other site 983917000539 ATP binding site [chemical binding]; other site 983917000540 Q-loop/lid; other site 983917000541 ABC transporter signature motif; other site 983917000542 Walker B; other site 983917000543 D-loop; other site 983917000544 H-loop/switch region; other site 983917000545 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 983917000546 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 983917000547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917000548 Walker A/P-loop; other site 983917000549 ATP binding site [chemical binding]; other site 983917000550 Q-loop/lid; other site 983917000551 ABC transporter signature motif; other site 983917000552 Walker B; other site 983917000553 D-loop; other site 983917000554 H-loop/switch region; other site 983917000555 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917000556 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 983917000557 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_6; cd08494 983917000558 amidase; Provisional; Region: PRK07042 983917000559 Amidase; Region: Amidase; cl11426 983917000560 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 983917000561 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 983917000562 OsmC-like protein; Region: OsmC; pfam02566 983917000563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917000564 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917000565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917000566 NADH(P)-binding; Region: NAD_binding_10; pfam13460 983917000567 NAD(P) binding site [chemical binding]; other site 983917000568 active site 983917000569 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 983917000570 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917000571 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 983917000572 DNA binding residues [nucleotide binding] 983917000573 H-NS histone family; Region: Histone_HNS; pfam00816 983917000574 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 983917000575 glycerol kinase; Provisional; Region: glpK; PRK00047 983917000576 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 983917000577 N- and C-terminal domain interface [polypeptide binding]; other site 983917000578 active site 983917000579 MgATP binding site [chemical binding]; other site 983917000580 catalytic site [active] 983917000581 metal binding site [ion binding]; metal-binding site 983917000582 glycerol binding site [chemical binding]; other site 983917000583 homotetramer interface [polypeptide binding]; other site 983917000584 homodimer interface [polypeptide binding]; other site 983917000585 FBP binding site [chemical binding]; other site 983917000586 protein IIAGlc interface [polypeptide binding]; other site 983917000587 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 983917000588 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917000589 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 983917000590 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 983917000591 EamA-like transporter family; Region: EamA; pfam00892 983917000592 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 983917000593 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 983917000594 Cysteine-rich domain; Region: CCG; pfam02754 983917000595 Cysteine-rich domain; Region: CCG; pfam02754 983917000596 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 983917000597 S-adenosylmethionine binding site [chemical binding]; other site 983917000598 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 983917000599 FAD binding domain; Region: FAD_binding_4; pfam01565 983917000600 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 983917000601 FAD binding domain; Region: FAD_binding_4; pfam01565 983917000602 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 983917000603 active site 983917000604 substrate binding site [chemical binding]; other site 983917000605 ATP binding site [chemical binding]; other site 983917000606 activation loop (A-loop); other site 983917000607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 983917000608 FIST N domain; Region: FIST; smart00897 983917000609 FIST C domain; Region: FIST_C; pfam10442 983917000610 TraB family; Region: TraB; pfam01963 983917000611 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 983917000612 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 983917000613 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 983917000614 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 983917000615 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 983917000616 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 983917000617 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 983917000618 tandem repeat interface [polypeptide binding]; other site 983917000619 oligomer interface [polypeptide binding]; other site 983917000620 active site residues [active] 983917000621 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 983917000622 tandem repeat interface [polypeptide binding]; other site 983917000623 oligomer interface [polypeptide binding]; other site 983917000624 active site residues [active] 983917000625 Membrane transport protein; Region: Mem_trans; cl09117 983917000626 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 983917000627 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 983917000628 Predicted membrane protein [Function unknown]; Region: COG2860 983917000629 UPF0126 domain; Region: UPF0126; pfam03458 983917000630 UPF0126 domain; Region: UPF0126; pfam03458 983917000631 primosomal protein N' Region: priA; TIGR00595 983917000632 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 983917000633 ATP binding site [chemical binding]; other site 983917000634 putative Mg++ binding site [ion binding]; other site 983917000635 helicase superfamily c-terminal domain; Region: HELICc; smart00490 983917000636 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 983917000637 substrate binding site [chemical binding]; other site 983917000638 active site 983917000639 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 983917000640 Repair protein; Region: Repair_PSII; pfam04536 983917000641 Repair protein; Region: Repair_PSII; pfam04536 983917000642 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 983917000643 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 983917000644 XdhC Rossmann domain; Region: XdhC_C; pfam13478 983917000645 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 983917000646 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 983917000647 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 983917000648 gamma subunit interface [polypeptide binding]; other site 983917000649 epsilon subunit interface [polypeptide binding]; other site 983917000650 LBP interface [polypeptide binding]; other site 983917000651 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 983917000652 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 983917000653 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 983917000654 alpha subunit interaction interface [polypeptide binding]; other site 983917000655 Walker A motif; other site 983917000656 ATP binding site [chemical binding]; other site 983917000657 Walker B motif; other site 983917000658 inhibitor binding site; inhibition site 983917000659 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 983917000660 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 983917000661 core domain interface [polypeptide binding]; other site 983917000662 delta subunit interface [polypeptide binding]; other site 983917000663 epsilon subunit interface [polypeptide binding]; other site 983917000664 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 983917000665 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 983917000666 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 983917000667 beta subunit interaction interface [polypeptide binding]; other site 983917000668 Walker A motif; other site 983917000669 ATP binding site [chemical binding]; other site 983917000670 Walker B motif; other site 983917000671 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 983917000672 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 983917000673 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 983917000674 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 983917000675 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 983917000676 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 983917000677 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 983917000678 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 983917000679 ATP synthase I chain; Region: ATP_synt_I; pfam03899 983917000680 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 983917000681 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 983917000682 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 983917000683 DsbD alpha interface [polypeptide binding]; other site 983917000684 catalytic residues [active] 983917000685 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 983917000686 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 983917000687 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 983917000688 active site 983917000689 catalytic residues [active] 983917000690 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917000691 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 983917000692 Cytochrome C' Region: Cytochrom_C_2; pfam01322 983917000693 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 983917000694 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 983917000695 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 983917000696 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 983917000697 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 983917000698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917000699 homodimer interface [polypeptide binding]; other site 983917000700 catalytic residue [active] 983917000701 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 983917000702 EamA-like transporter family; Region: EamA; pfam00892 983917000703 EamA-like transporter family; Region: EamA; pfam00892 983917000704 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 983917000705 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917000706 DNA-binding site [nucleotide binding]; DNA binding site 983917000707 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 983917000708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917000709 homodimer interface [polypeptide binding]; other site 983917000710 catalytic residue [active] 983917000711 ABC transporter ATPase component; Reviewed; Region: PRK11147 983917000712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 983917000713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917000714 Walker A/P-loop; other site 983917000715 Walker A/P-loop; other site 983917000716 ATP binding site [chemical binding]; other site 983917000717 ATP binding site [chemical binding]; other site 983917000718 Q-loop/lid; other site 983917000719 ABC transporter signature motif; other site 983917000720 Walker B; other site 983917000721 D-loop; other site 983917000722 H-loop/switch region; other site 983917000723 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917000724 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 983917000725 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 983917000726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917000727 catalytic residue [active] 983917000728 glutathione synthetase; Provisional; Region: PRK05246 983917000729 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 983917000730 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 983917000731 Benzoate membrane transport protein; Region: BenE; pfam03594 983917000732 benzoate transporter; Region: benE; TIGR00843 983917000733 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 983917000734 potassium uptake protein; Region: kup; TIGR00794 983917000735 Glutamate-cysteine ligase; Region: GshA; pfam08886 983917000736 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 983917000737 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 983917000738 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 983917000739 Nitrogen regulatory protein P-II; Region: P-II; smart00938 983917000740 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 983917000741 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 983917000742 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 983917000743 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 983917000744 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 983917000745 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 983917000746 substrate binding pocket [chemical binding]; other site 983917000747 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 983917000748 B12 binding site [chemical binding]; other site 983917000749 cobalt ligand [ion binding]; other site 983917000750 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 983917000751 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 983917000752 glucokinase; Provisional; Region: glk; PRK00292 983917000753 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 983917000754 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 983917000755 putative active site [active] 983917000756 Glucokinase; Region: Glucokinase; cl17310 983917000757 glucokinase, proteobacterial type; Region: glk; TIGR00749 983917000758 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 983917000759 trimer interface; other site 983917000760 sugar binding site [chemical binding]; other site 983917000761 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 983917000762 carbohydrate binding site [chemical binding]; other site 983917000763 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 983917000764 active site 983917000765 catalytic site [active] 983917000766 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 983917000767 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 983917000768 dimer interface [polypeptide binding]; other site 983917000769 conserved gate region; other site 983917000770 putative PBP binding loops; other site 983917000771 ABC-ATPase subunit interface; other site 983917000772 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 983917000773 dimer interface [polypeptide binding]; other site 983917000774 conserved gate region; other site 983917000775 putative PBP binding loops; other site 983917000776 ABC-ATPase subunit interface; other site 983917000777 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 983917000778 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 983917000779 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 983917000780 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 983917000781 Walker A/P-loop; other site 983917000782 ATP binding site [chemical binding]; other site 983917000783 Q-loop/lid; other site 983917000784 ABC transporter signature motif; other site 983917000785 Walker B; other site 983917000786 D-loop; other site 983917000787 H-loop/switch region; other site 983917000788 TOBE domain; Region: TOBE_2; pfam08402 983917000789 Short C-terminal domain; Region: SHOCT; pfam09851 983917000790 trehalose synthase; Region: treS_nterm; TIGR02456 983917000791 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 983917000792 Ca binding site [ion binding]; other site 983917000793 active site 983917000794 catalytic site [active] 983917000795 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 983917000796 carbohydrate binding site [chemical binding]; other site 983917000797 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 983917000798 carbohydrate binding site [chemical binding]; other site 983917000799 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 983917000800 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 983917000801 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 983917000802 Ca binding site [ion binding]; other site 983917000803 active site 983917000804 catalytic site [active] 983917000805 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 983917000806 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 983917000807 Part of AAA domain; Region: AAA_19; pfam13245 983917000808 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983917000809 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 983917000810 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983917000811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917000812 active site 983917000813 phosphorylation site [posttranslational modification] 983917000814 intermolecular recognition site; other site 983917000815 dimerization interface [polypeptide binding]; other site 983917000816 LytTr DNA-binding domain; Region: LytTR; pfam04397 983917000817 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 983917000818 Histidine kinase; Region: His_kinase; pfam06580 983917000819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917000820 ATP binding site [chemical binding]; other site 983917000821 Mg2+ binding site [ion binding]; other site 983917000822 G-X-G motif; other site 983917000823 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 983917000824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917000825 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 983917000826 dimerization interface [polypeptide binding]; other site 983917000827 Transcriptional regulator; Region: Rrf2; cl17282 983917000828 Rrf2 family protein; Region: rrf2_super; TIGR00738 983917000829 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 983917000830 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 983917000831 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 983917000832 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 983917000833 Uncharacterized conserved protein [Function unknown]; Region: COG2353 983917000834 YceI-like domain; Region: YceI; smart00867 983917000835 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 983917000836 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 983917000837 nudix motif; other site 983917000838 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 983917000839 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 983917000840 dimer interface [polypeptide binding]; other site 983917000841 PYR/PP interface [polypeptide binding]; other site 983917000842 TPP binding site [chemical binding]; other site 983917000843 substrate binding site [chemical binding]; other site 983917000844 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 983917000845 TPP-binding site; other site 983917000846 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 983917000847 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917000848 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 983917000849 dimerization interface [polypeptide binding]; other site 983917000850 putative DNA binding site [nucleotide binding]; other site 983917000851 putative Zn2+ binding site [ion binding]; other site 983917000852 AsnC family; Region: AsnC_trans_reg; pfam01037 983917000853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917000854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917000855 metal binding site [ion binding]; metal-binding site 983917000856 active site 983917000857 I-site; other site 983917000858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917000859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917000860 metal binding site [ion binding]; metal-binding site 983917000861 active site 983917000862 I-site; other site 983917000863 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 983917000864 MltA specific insert domain; Region: MltA; smart00925 983917000865 3D domain; Region: 3D; pfam06725 983917000866 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 983917000867 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 983917000868 Site-specific recombinase; Region: SpecificRecomb; pfam10136 983917000869 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 983917000870 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 983917000871 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 983917000872 substrate binding site [chemical binding]; other site 983917000873 hexamer interface [polypeptide binding]; other site 983917000874 metal binding site [ion binding]; metal-binding site 983917000875 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 983917000876 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 983917000877 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 983917000878 TM-ABC transporter signature motif; other site 983917000879 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917000880 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 983917000881 TM-ABC transporter signature motif; other site 983917000882 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 983917000883 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 983917000884 putative ligand binding site [chemical binding]; other site 983917000885 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 983917000886 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 983917000887 Walker A/P-loop; other site 983917000888 ATP binding site [chemical binding]; other site 983917000889 Q-loop/lid; other site 983917000890 ABC transporter signature motif; other site 983917000891 Walker B; other site 983917000892 D-loop; other site 983917000893 H-loop/switch region; other site 983917000894 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 983917000895 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 983917000896 Walker A/P-loop; other site 983917000897 ATP binding site [chemical binding]; other site 983917000898 Q-loop/lid; other site 983917000899 ABC transporter signature motif; other site 983917000900 Walker B; other site 983917000901 D-loop; other site 983917000902 H-loop/switch region; other site 983917000903 Transcriptional regulator [Transcription]; Region: IclR; COG1414 983917000904 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 983917000905 Bacterial transcriptional regulator; Region: IclR; pfam01614 983917000906 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917000907 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 983917000908 putative DNA binding site [nucleotide binding]; other site 983917000909 dimerization interface [polypeptide binding]; other site 983917000910 putative Zn2+ binding site [ion binding]; other site 983917000911 AsnC family; Region: AsnC_trans_reg; pfam01037 983917000912 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 983917000913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917000914 phosphoglycolate phosphatase; Provisional; Region: PRK13222 983917000915 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 983917000916 motif II; other site 983917000917 anthranilate synthase component I; Provisional; Region: PRK13565 983917000918 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 983917000919 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 983917000920 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 983917000921 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 983917000922 glutamine binding [chemical binding]; other site 983917000923 catalytic triad [active] 983917000924 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 983917000925 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 983917000926 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 983917000927 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 983917000928 active site 983917000929 ribulose/triose binding site [chemical binding]; other site 983917000930 phosphate binding site [ion binding]; other site 983917000931 substrate (anthranilate) binding pocket [chemical binding]; other site 983917000932 product (indole) binding pocket [chemical binding]; other site 983917000933 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 983917000934 ligand binding site [chemical binding]; other site 983917000935 active site 983917000936 elongation factor Tu; Reviewed; Region: PRK00049 983917000937 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 983917000938 G1 box; other site 983917000939 GEF interaction site [polypeptide binding]; other site 983917000940 GTP/Mg2+ binding site [chemical binding]; other site 983917000941 Switch I region; other site 983917000942 G2 box; other site 983917000943 G3 box; other site 983917000944 Switch II region; other site 983917000945 G4 box; other site 983917000946 G5 box; other site 983917000947 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 983917000948 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 983917000949 Antibiotic Binding Site [chemical binding]; other site 983917000950 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 983917000951 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 983917000952 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 983917000953 putative homodimer interface [polypeptide binding]; other site 983917000954 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 983917000955 heterodimer interface [polypeptide binding]; other site 983917000956 homodimer interface [polypeptide binding]; other site 983917000957 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 983917000958 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 983917000959 23S rRNA interface [nucleotide binding]; other site 983917000960 L7/L12 interface [polypeptide binding]; other site 983917000961 putative thiostrepton binding site; other site 983917000962 L25 interface [polypeptide binding]; other site 983917000963 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 983917000964 mRNA/rRNA interface [nucleotide binding]; other site 983917000965 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 983917000966 23S rRNA interface [nucleotide binding]; other site 983917000967 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 983917000968 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 983917000969 peripheral dimer interface [polypeptide binding]; other site 983917000970 core dimer interface [polypeptide binding]; other site 983917000971 L10 interface [polypeptide binding]; other site 983917000972 L11 interface [polypeptide binding]; other site 983917000973 putative EF-Tu interaction site [polypeptide binding]; other site 983917000974 putative EF-G interaction site [polypeptide binding]; other site 983917000975 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 983917000976 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 983917000977 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 983917000978 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 983917000979 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 983917000980 RPB3 interaction site [polypeptide binding]; other site 983917000981 RPB1 interaction site [polypeptide binding]; other site 983917000982 RPB11 interaction site [polypeptide binding]; other site 983917000983 RPB10 interaction site [polypeptide binding]; other site 983917000984 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 983917000985 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 983917000986 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 983917000987 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 983917000988 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 983917000989 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 983917000990 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 983917000991 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 983917000992 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 983917000993 DNA binding site [nucleotide binding] 983917000994 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 983917000995 PIN domain; Region: PIN_3; pfam13470 983917000996 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 983917000997 S17 interaction site [polypeptide binding]; other site 983917000998 S8 interaction site; other site 983917000999 16S rRNA interaction site [nucleotide binding]; other site 983917001000 streptomycin interaction site [chemical binding]; other site 983917001001 23S rRNA interaction site [nucleotide binding]; other site 983917001002 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 983917001003 30S ribosomal protein S7; Validated; Region: PRK05302 983917001004 elongation factor G; Reviewed; Region: PRK00007 983917001005 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 983917001006 G1 box; other site 983917001007 putative GEF interaction site [polypeptide binding]; other site 983917001008 GTP/Mg2+ binding site [chemical binding]; other site 983917001009 Switch I region; other site 983917001010 G2 box; other site 983917001011 G3 box; other site 983917001012 Switch II region; other site 983917001013 G4 box; other site 983917001014 G5 box; other site 983917001015 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 983917001016 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 983917001017 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 983917001018 elongation factor Tu; Reviewed; Region: PRK00049 983917001019 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 983917001020 G1 box; other site 983917001021 GEF interaction site [polypeptide binding]; other site 983917001022 GTP/Mg2+ binding site [chemical binding]; other site 983917001023 Switch I region; other site 983917001024 G2 box; other site 983917001025 G3 box; other site 983917001026 Switch II region; other site 983917001027 G4 box; other site 983917001028 G5 box; other site 983917001029 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 983917001030 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 983917001031 Antibiotic Binding Site [chemical binding]; other site 983917001032 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 983917001033 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 983917001034 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 983917001035 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 983917001036 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 983917001037 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 983917001038 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 983917001039 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 983917001040 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 983917001041 putative translocon binding site; other site 983917001042 protein-rRNA interface [nucleotide binding]; other site 983917001043 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 983917001044 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 983917001045 G-X-X-G motif; other site 983917001046 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 983917001047 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 983917001048 23S rRNA interface [nucleotide binding]; other site 983917001049 5S rRNA interface [nucleotide binding]; other site 983917001050 putative antibiotic binding site [chemical binding]; other site 983917001051 L25 interface [polypeptide binding]; other site 983917001052 L27 interface [polypeptide binding]; other site 983917001053 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 983917001054 23S rRNA interface [nucleotide binding]; other site 983917001055 putative translocon interaction site; other site 983917001056 signal recognition particle (SRP54) interaction site; other site 983917001057 L23 interface [polypeptide binding]; other site 983917001058 trigger factor interaction site; other site 983917001059 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 983917001060 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 983917001061 catalytic triad [active] 983917001062 dimer interface [polypeptide binding]; other site 983917001063 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 983917001064 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 983917001065 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 983917001066 RNA binding site [nucleotide binding]; other site 983917001067 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 983917001068 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 983917001069 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 983917001070 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 983917001071 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 983917001072 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 983917001073 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 983917001074 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 983917001075 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 983917001076 5S rRNA interface [nucleotide binding]; other site 983917001077 23S rRNA interface [nucleotide binding]; other site 983917001078 L5 interface [polypeptide binding]; other site 983917001079 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 983917001080 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 983917001081 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 983917001082 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 983917001083 23S rRNA binding site [nucleotide binding]; other site 983917001084 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 983917001085 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 983917001086 SecY translocase; Region: SecY; pfam00344 983917001087 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 983917001088 rRNA binding site [nucleotide binding]; other site 983917001089 predicted 30S ribosome binding site; other site 983917001090 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 983917001091 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 983917001092 30S ribosomal protein S13; Region: bact_S13; TIGR03631 983917001093 30S ribosomal protein S11; Validated; Region: PRK05309 983917001094 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 983917001095 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 983917001096 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 983917001097 RNA binding surface [nucleotide binding]; other site 983917001098 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 983917001099 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 983917001100 alphaNTD homodimer interface [polypeptide binding]; other site 983917001101 alphaNTD - beta interaction site [polypeptide binding]; other site 983917001102 alphaNTD - beta' interaction site [polypeptide binding]; other site 983917001103 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 983917001104 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 983917001105 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 983917001106 Ligand Binding Site [chemical binding]; other site 983917001107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917001108 NAD(P) binding site [chemical binding]; other site 983917001109 active site 983917001110 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917001111 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 983917001112 acyl-activating enzyme (AAE) consensus motif; other site 983917001113 acyl-activating enzyme (AAE) consensus motif; other site 983917001114 putative AMP binding site [chemical binding]; other site 983917001115 putative active site [active] 983917001116 putative CoA binding site [chemical binding]; other site 983917001117 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917001118 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983917001119 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917001120 Walker A/P-loop; other site 983917001121 ATP binding site [chemical binding]; other site 983917001122 Q-loop/lid; other site 983917001123 ABC transporter signature motif; other site 983917001124 Walker B; other site 983917001125 D-loop; other site 983917001126 H-loop/switch region; other site 983917001127 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 983917001128 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 983917001129 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 983917001130 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 983917001131 putative CoA binding site [chemical binding]; other site 983917001132 putative trimer interface [polypeptide binding]; other site 983917001133 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983917001134 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001135 TPR motif; other site 983917001136 binding surface 983917001137 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001138 TPR motif; other site 983917001139 binding surface 983917001140 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001141 binding surface 983917001142 TPR motif; other site 983917001143 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001144 binding surface 983917001145 TPR motif; other site 983917001146 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 983917001147 active site 983917001148 catalytic residues [active] 983917001149 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 983917001150 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 983917001151 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 983917001152 Predicted integral membrane protein [Function unknown]; Region: COG0392 983917001153 cardiolipin synthase 2; Provisional; Region: PRK11263 983917001154 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 983917001155 putative active site [active] 983917001156 catalytic site [active] 983917001157 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917001158 putative active site [active] 983917001159 catalytic site [active] 983917001160 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 983917001161 putative catalytic site [active] 983917001162 putative metal binding site [ion binding]; other site 983917001163 putative phosphate binding site [ion binding]; other site 983917001164 Predicted dehydrogenase [General function prediction only]; Region: COG5322 983917001165 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 983917001166 NAD(P) binding pocket [chemical binding]; other site 983917001167 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 983917001168 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 983917001169 putative active site [active] 983917001170 metal binding site [ion binding]; metal-binding site 983917001171 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 983917001172 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 983917001173 FeS/SAM binding site; other site 983917001174 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 983917001175 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 983917001176 ATP cone domain; Region: ATP-cone; pfam03477 983917001177 Class III ribonucleotide reductase; Region: RNR_III; cd01675 983917001178 effector binding site; other site 983917001179 active site 983917001180 Zn binding site [ion binding]; other site 983917001181 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 983917001182 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 983917001183 Peptidase family U32; Region: Peptidase_U32; pfam01136 983917001184 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 983917001185 putative protease; Provisional; Region: PRK15447 983917001186 SCP-2 sterol transfer family; Region: SCP2; cl01225 983917001187 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917001188 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917001189 dimer interface [polypeptide binding]; other site 983917001190 putative CheW interface [polypeptide binding]; other site 983917001191 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 983917001192 (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 983917001193 dimer interaction site [polypeptide binding]; other site 983917001194 substrate-binding tunnel; other site 983917001195 active site 983917001196 catalytic site [active] 983917001197 substrate binding site [chemical binding]; other site 983917001198 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 983917001199 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 983917001200 propionate/acetate kinase; Provisional; Region: PRK12379 983917001201 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 983917001202 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 983917001203 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 983917001204 selenophosphate synthetase; Provisional; Region: PRK00943 983917001205 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 983917001206 dimerization interface [polypeptide binding]; other site 983917001207 putative ATP binding site [chemical binding]; other site 983917001208 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 983917001209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917001210 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 983917001211 Walker A/P-loop; other site 983917001212 ATP binding site [chemical binding]; other site 983917001213 Q-loop/lid; other site 983917001214 ABC transporter signature motif; other site 983917001215 Walker B; other site 983917001216 D-loop; other site 983917001217 H-loop/switch region; other site 983917001218 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 983917001219 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 983917001220 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 983917001221 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983917001222 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 983917001223 putative NAD(P) binding site [chemical binding]; other site 983917001224 active site 983917001225 putative substrate binding site [chemical binding]; other site 983917001226 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917001227 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 983917001228 PilZ domain; Region: PilZ; pfam07238 983917001229 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 983917001230 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983917001231 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001232 binding surface 983917001233 TPR motif; other site 983917001234 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001235 TPR motif; other site 983917001236 binding surface 983917001237 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917001238 binding surface 983917001239 TPR motif; other site 983917001240 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 983917001241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917001242 active site 983917001243 phosphorylation site [posttranslational modification] 983917001244 intermolecular recognition site; other site 983917001245 dimerization interface [polypeptide binding]; other site 983917001246 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 983917001247 Walker A motif; other site 983917001248 ATP binding site [chemical binding]; other site 983917001249 Walker B motif; other site 983917001250 arginine finger; other site 983917001251 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917001252 GAF domain; Region: GAF_3; pfam13492 983917001253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917001254 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 983917001255 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917001256 ATP binding site [chemical binding]; other site 983917001257 Mg2+ binding site [ion binding]; other site 983917001258 G-X-G motif; other site 983917001259 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 983917001260 Bacterial sugar transferase; Region: Bac_transf; pfam02397 983917001261 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 983917001262 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 983917001263 SLBB domain; Region: SLBB; pfam10531 983917001264 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 983917001265 Chain length determinant protein; Region: Wzz; cl15801 983917001266 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 983917001267 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 983917001268 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 983917001269 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 983917001270 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 983917001271 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 983917001272 Walker A motif; other site 983917001273 ATP binding site [chemical binding]; other site 983917001274 Walker B motif; other site 983917001275 arginine finger; other site 983917001276 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 983917001277 active site 983917001278 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 983917001279 homodimer interface [polypeptide binding]; other site 983917001280 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 983917001281 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 983917001282 putative active site [active] 983917001283 putative catalytic site [active] 983917001284 FemAB-related protein, PEP-CTERM system-associated; Region: pepcterm_femAB; TIGR03019 983917001285 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 983917001286 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 983917001287 exosortase A; Region: exosortase_1; TIGR03109 983917001288 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 983917001289 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 983917001290 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 983917001291 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 983917001292 NAD binding site [chemical binding]; other site 983917001293 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 983917001294 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 983917001295 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 983917001296 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 983917001297 putative ADP-binding pocket [chemical binding]; other site 983917001298 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 983917001299 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 983917001300 active site 983917001301 dimer interface [polypeptide binding]; other site 983917001302 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 983917001303 Ligand Binding Site [chemical binding]; other site 983917001304 Molecular Tunnel; other site 983917001305 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 983917001306 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 983917001307 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 983917001308 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917001309 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917001310 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 983917001311 acyl-activating enzyme (AAE) consensus motif; other site 983917001312 active site 983917001313 AMP binding site [chemical binding]; other site 983917001314 CoA binding site [chemical binding]; other site 983917001315 probable O-glycosylation ligase, exosortase A-associated; Region: PEP_O_lig_1; TIGR03097 983917001316 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 983917001317 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917001318 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 983917001319 active site 983917001320 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 983917001321 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 983917001322 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 983917001323 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917001324 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 983917001325 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 983917001326 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 983917001327 Ligand Binding Site [chemical binding]; other site 983917001328 Molecular Tunnel; other site 983917001329 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983917001330 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 983917001331 active site 983917001332 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917001333 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 983917001334 active site 983917001335 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917001336 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 983917001337 active site 983917001338 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 983917001339 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 983917001340 putative active site [active] 983917001341 putative metal binding site [ion binding]; other site 983917001342 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 983917001343 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 983917001344 Walker A/P-loop; other site 983917001345 ATP binding site [chemical binding]; other site 983917001346 Q-loop/lid; other site 983917001347 ABC transporter signature motif; other site 983917001348 Walker B; other site 983917001349 D-loop; other site 983917001350 H-loop/switch region; other site 983917001351 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 983917001352 putative carbohydrate binding site [chemical binding]; other site 983917001353 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 983917001354 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 983917001355 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 983917001356 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917001357 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983917001358 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 983917001359 active site 983917001360 Methyltransferase domain; Region: Methyltransf_24; pfam13578 983917001361 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 983917001362 Acyltransferase family; Region: Acyl_transf_3; pfam01757 983917001363 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 983917001364 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 983917001365 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 983917001366 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 983917001367 Ligand Binding Site [chemical binding]; other site 983917001368 Molecular Tunnel; other site 983917001369 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 983917001370 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 983917001371 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 983917001372 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 983917001373 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 983917001374 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 983917001375 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 983917001376 Protein export membrane protein; Region: SecD_SecF; pfam02355 983917001377 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 983917001378 Protein of unknown function (DUF494); Region: DUF494; pfam04361 983917001379 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 983917001380 DNA protecting protein DprA; Region: dprA; TIGR00732 983917001381 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917001382 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 983917001383 active site 983917001384 catalytic residues [active] 983917001385 metal binding site [ion binding]; metal-binding site 983917001386 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 983917001387 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 983917001388 putative active site [active] 983917001389 substrate binding site [chemical binding]; other site 983917001390 putative cosubstrate binding site; other site 983917001391 catalytic site [active] 983917001392 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 983917001393 substrate binding site [chemical binding]; other site 983917001394 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983917001395 AzlC protein; Region: AzlC; pfam03591 983917001396 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 983917001397 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 983917001398 Phosphoglycerate kinase; Region: PGK; pfam00162 983917001399 substrate binding site [chemical binding]; other site 983917001400 hinge regions; other site 983917001401 ADP binding site [chemical binding]; other site 983917001402 catalytic site [active] 983917001403 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 983917001404 Malic enzyme, N-terminal domain; Region: malic; pfam00390 983917001405 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 983917001406 putative NAD(P) binding site [chemical binding]; other site 983917001407 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 983917001408 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 983917001409 pyruvate kinase; Provisional; Region: PRK05826 983917001410 domain interfaces; other site 983917001411 active site 983917001412 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 983917001413 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 983917001414 intersubunit interface [polypeptide binding]; other site 983917001415 active site 983917001416 zinc binding site [ion binding]; other site 983917001417 Na+ binding site [ion binding]; other site 983917001418 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 983917001419 ATP binding site [chemical binding]; other site 983917001420 active site 983917001421 substrate binding site [chemical binding]; other site 983917001422 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 983917001423 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 983917001424 ATP-grasp domain; Region: ATP-grasp; pfam02222 983917001425 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 983917001426 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 983917001427 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 983917001428 active site 983917001429 catalytic triad [active] 983917001430 oxyanion hole [active] 983917001431 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 983917001432 active site 983917001433 catalytic triad [active] 983917001434 oxyanion hole [active] 983917001435 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 983917001436 Uncharacterized conserved protein [Function unknown]; Region: COG4095 983917001437 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 983917001438 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 983917001439 Glycoprotease family; Region: Peptidase_M22; pfam00814 983917001440 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 983917001441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917001442 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 983917001443 Fe-S cluster binding site [ion binding]; other site 983917001444 active site 983917001445 PAS domain; Region: PAS_9; pfam13426 983917001446 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917001447 putative active site [active] 983917001448 heme pocket [chemical binding]; other site 983917001449 PAS domain S-box; Region: sensory_box; TIGR00229 983917001450 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917001451 putative active site [active] 983917001452 heme pocket [chemical binding]; other site 983917001453 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917001454 dimer interface [polypeptide binding]; other site 983917001455 phosphorylation site [posttranslational modification] 983917001456 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 983917001457 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 983917001458 Substrate binding site; other site 983917001459 Mg++ binding site; other site 983917001460 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 983917001461 active site 983917001462 substrate binding site [chemical binding]; other site 983917001463 CoA binding site [chemical binding]; other site 983917001464 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 983917001465 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 983917001466 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 983917001467 Ligand Binding Site [chemical binding]; other site 983917001468 Dihydroneopterin aldolase; Region: FolB; smart00905 983917001469 active site 983917001470 short chain dehydrogenase; Provisional; Region: PRK09134 983917001471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917001472 NAD(P) binding site [chemical binding]; other site 983917001473 active site 983917001474 Uncharacterized conserved protein [Function unknown]; Region: COG1565 983917001475 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 983917001476 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 983917001477 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 983917001478 active site 983917001479 NTP binding site [chemical binding]; other site 983917001480 metal binding triad [ion binding]; metal-binding site 983917001481 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 983917001482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917001483 Zn2+ binding site [ion binding]; other site 983917001484 Mg2+ binding site [ion binding]; other site 983917001485 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 983917001486 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 983917001487 putative C-terminal domain interface [polypeptide binding]; other site 983917001488 putative GSH binding site (G-site) [chemical binding]; other site 983917001489 putative dimer interface [polypeptide binding]; other site 983917001490 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 983917001491 putative N-terminal domain interface [polypeptide binding]; other site 983917001492 putative dimer interface [polypeptide binding]; other site 983917001493 putative substrate binding pocket (H-site) [chemical binding]; other site 983917001494 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 983917001495 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 983917001496 putative NAD(P) binding site [chemical binding]; other site 983917001497 active site 983917001498 lytic murein transglycosylase; Provisional; Region: PRK11619 983917001499 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 983917001500 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917001501 catalytic residue [active] 983917001502 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 983917001503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917001504 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 983917001505 dimerization interface [polypeptide binding]; other site 983917001506 substrate binding pocket [chemical binding]; other site 983917001507 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 983917001508 TfoX N-terminal domain; Region: TfoX_N; pfam04993 983917001509 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 983917001510 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 983917001511 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 983917001512 active site 983917001513 catalytic triad [active] 983917001514 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 983917001515 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 983917001516 FAD binding site [chemical binding]; other site 983917001517 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 983917001518 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 983917001519 homotetramer interface [polypeptide binding]; other site 983917001520 ligand binding site [chemical binding]; other site 983917001521 catalytic site [active] 983917001522 NAD binding site [chemical binding]; other site 983917001523 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 983917001524 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 983917001525 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 983917001526 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 983917001527 ATP-grasp domain; Region: ATP-grasp; pfam02222 983917001528 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 983917001529 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 983917001530 Response regulator receiver domain; Region: Response_reg; pfam00072 983917001531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917001532 active site 983917001533 phosphorylation site [posttranslational modification] 983917001534 intermolecular recognition site; other site 983917001535 dimerization interface [polypeptide binding]; other site 983917001536 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 983917001537 putative dimer interface [polypeptide binding]; other site 983917001538 catalytic triad [active] 983917001539 HipA N-terminal domain; Region: Couple_hipA; pfam13657 983917001540 HipA-like N-terminal domain; Region: HipA_N; pfam07805 983917001541 HipA-like C-terminal domain; Region: HipA_C; pfam07804 983917001542 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 983917001543 non-specific DNA binding site [nucleotide binding]; other site 983917001544 salt bridge; other site 983917001545 sequence-specific DNA binding site [nucleotide binding]; other site 983917001546 S-adenosylmethionine synthetase; Validated; Region: PRK05250 983917001547 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 983917001548 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 983917001549 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 983917001550 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 983917001551 putative acyl-acceptor binding pocket; other site 983917001552 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 983917001553 putative acyl-acceptor binding pocket; other site 983917001554 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 983917001555 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 983917001556 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 983917001557 Protein of unknown function, DUF484; Region: DUF484; cl17449 983917001558 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 983917001559 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 983917001560 active site 983917001561 DNA binding site [nucleotide binding] 983917001562 Int/Topo IB signature motif; other site 983917001563 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 983917001564 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 983917001565 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 983917001566 putative RNA binding site [nucleotide binding]; other site 983917001567 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 983917001568 S-adenosylmethionine binding site [chemical binding]; other site 983917001569 tellurium resistance terB-like protein; Region: terB_like; cl11965 983917001570 metal binding site [ion binding]; metal-binding site 983917001571 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917001572 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 983917001573 AsnC family; Region: AsnC_trans_reg; pfam01037 983917001574 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 983917001575 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 983917001576 glutaminase active site [active] 983917001577 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 983917001578 dimer interface [polypeptide binding]; other site 983917001579 active site 983917001580 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 983917001581 dimer interface [polypeptide binding]; other site 983917001582 active site 983917001583 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 983917001584 Uncharacterized conserved protein [Function unknown]; Region: COG2128 983917001585 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 983917001586 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 983917001587 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 983917001588 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 983917001589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917001590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917001591 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 983917001592 dimerization interface [polypeptide binding]; other site 983917001593 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 983917001594 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 983917001595 inhibitor site; inhibition site 983917001596 active site 983917001597 dimer interface [polypeptide binding]; other site 983917001598 catalytic residue [active] 983917001599 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 983917001600 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 983917001601 trimer interface [polypeptide binding]; other site 983917001602 eyelet of channel; other site 983917001603 benzoate transport; Region: 2A0115; TIGR00895 983917001604 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 983917001605 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 983917001606 Pyruvate formate lyase 1; Region: PFL1; cd01678 983917001607 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 983917001608 coenzyme A binding site [chemical binding]; other site 983917001609 active site 983917001610 catalytic residues [active] 983917001611 glycine loop; other site 983917001612 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 983917001613 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 983917001614 FeS/SAM binding site; other site 983917001615 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 983917001616 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 983917001617 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 983917001618 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 983917001619 Predicted flavoprotein [General function prediction only]; Region: COG0431 983917001620 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 983917001621 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 983917001622 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 983917001623 active site 983917001624 metal binding site [ion binding]; metal-binding site 983917001625 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 983917001626 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 983917001627 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983917001628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917001629 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 983917001630 GAF domain; Region: GAF_2; pfam13185 983917001631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917001632 metal binding site [ion binding]; metal-binding site 983917001633 active site 983917001634 I-site; other site 983917001635 elongation factor G; Reviewed; Region: PRK00007 983917001636 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 983917001637 G1 box; other site 983917001638 putative GEF interaction site [polypeptide binding]; other site 983917001639 GTP/Mg2+ binding site [chemical binding]; other site 983917001640 Switch I region; other site 983917001641 G2 box; other site 983917001642 G3 box; other site 983917001643 Switch II region; other site 983917001644 G4 box; other site 983917001645 G5 box; other site 983917001646 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 983917001647 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 983917001648 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 983917001649 Inner membrane protein CreD; Region: CreD; cl01844 983917001650 sensory histidine kinase CreC; Provisional; Region: PRK11100 983917001651 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917001652 dimer interface [polypeptide binding]; other site 983917001653 phosphorylation site [posttranslational modification] 983917001654 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917001655 ATP binding site [chemical binding]; other site 983917001656 Mg2+ binding site [ion binding]; other site 983917001657 G-X-G motif; other site 983917001658 DNA-binding response regulator CreB; Provisional; Region: PRK11083 983917001659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917001660 active site 983917001661 phosphorylation site [posttranslational modification] 983917001662 intermolecular recognition site; other site 983917001663 dimerization interface [polypeptide binding]; other site 983917001664 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 983917001665 DNA binding site [nucleotide binding] 983917001666 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 983917001667 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 983917001668 NADP binding site [chemical binding]; other site 983917001669 homodimer interface [polypeptide binding]; other site 983917001670 active site 983917001671 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 983917001672 Domain of unknown function (DUF386); Region: DUF386; cl01047 983917001673 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 983917001674 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 983917001675 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 983917001676 substrate binding site [chemical binding]; other site 983917001677 ATP binding site [chemical binding]; other site 983917001678 Transcriptional regulators [Transcription]; Region: GntR; COG1802 983917001679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917001680 DNA-binding site [nucleotide binding]; DNA binding site 983917001681 FCD domain; Region: FCD; pfam07729 983917001682 Cytochrome C' Region: Cytochrom_C_2; cl01610 983917001683 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917001684 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 983917001685 active site 983917001686 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 983917001687 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917001688 PA14 domain; Region: PA14; cl08459 983917001689 N-glycosyltransferase; Provisional; Region: PRK11204 983917001690 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 983917001691 DXD motif; other site 983917001692 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 983917001693 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 983917001694 catalytic core [active] 983917001695 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 983917001696 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983917001697 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 983917001698 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 983917001699 H-NS histone family; Region: Histone_HNS; pfam00816 983917001700 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 983917001701 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917001702 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917001703 PAS fold; Region: PAS_4; pfam08448 983917001704 putative active site [active] 983917001705 heme pocket [chemical binding]; other site 983917001706 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917001707 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917001708 putative active site [active] 983917001709 heme pocket [chemical binding]; other site 983917001710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917001711 dimer interface [polypeptide binding]; other site 983917001712 phosphorylation site [posttranslational modification] 983917001713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917001714 ATP binding site [chemical binding]; other site 983917001715 Mg2+ binding site [ion binding]; other site 983917001716 G-X-G motif; other site 983917001717 Response regulator receiver domain; Region: Response_reg; pfam00072 983917001718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917001719 active site 983917001720 phosphorylation site [posttranslational modification] 983917001721 intermolecular recognition site; other site 983917001722 dimerization interface [polypeptide binding]; other site 983917001723 Response regulator receiver domain; Region: Response_reg; pfam00072 983917001724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917001725 active site 983917001726 phosphorylation site [posttranslational modification] 983917001727 intermolecular recognition site; other site 983917001728 dimerization interface [polypeptide binding]; other site 983917001729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917001730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917001731 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 983917001732 putative dimerization interface [polypeptide binding]; other site 983917001733 LrgA family; Region: LrgA; pfam03788 983917001734 LrgB-like family; Region: LrgB; pfam04172 983917001735 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 983917001736 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 983917001737 intersubunit interface [polypeptide binding]; other site 983917001738 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 983917001739 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 983917001740 ABC-ATPase subunit interface; other site 983917001741 dimer interface [polypeptide binding]; other site 983917001742 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 983917001743 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 983917001744 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 983917001745 metal binding site 2 [ion binding]; metal-binding site 983917001746 putative DNA binding helix; other site 983917001747 metal binding site 1 [ion binding]; metal-binding site 983917001748 dimer interface [polypeptide binding]; other site 983917001749 structural Zn2+ binding site [ion binding]; other site 983917001750 Alkaline phosphatase homologues; Region: alkPPc; smart00098 983917001751 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 983917001752 active site 983917001753 dimer interface [polypeptide binding]; other site 983917001754 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 983917001755 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983917001756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917001757 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 983917001758 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 983917001759 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917001760 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 983917001761 N-terminal plug; other site 983917001762 ligand-binding site [chemical binding]; other site 983917001763 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 983917001764 muropeptide transporter; Validated; Region: ampG; cl17669 983917001765 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 983917001766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917001767 Walker A/P-loop; other site 983917001768 ATP binding site [chemical binding]; other site 983917001769 Q-loop/lid; other site 983917001770 ABC transporter signature motif; other site 983917001771 Walker B; other site 983917001772 D-loop; other site 983917001773 H-loop/switch region; other site 983917001774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917001775 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983917001776 Walker A/P-loop; other site 983917001777 ATP binding site [chemical binding]; other site 983917001778 Q-loop/lid; other site 983917001779 ABC transporter signature motif; other site 983917001780 Walker B; other site 983917001781 D-loop; other site 983917001782 H-loop/switch region; other site 983917001783 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 983917001784 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 983917001785 N-terminal plug; other site 983917001786 ligand-binding site [chemical binding]; other site 983917001787 SlyX; Region: SlyX; pfam04102 983917001788 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 983917001789 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 983917001790 acyl-activating enzyme (AAE) consensus motif; other site 983917001791 putative AMP binding site [chemical binding]; other site 983917001792 putative active site [active] 983917001793 putative CoA binding site [chemical binding]; other site 983917001794 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 983917001795 Hemin uptake protein hemP; Region: hemP; pfam10636 983917001796 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 983917001797 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 983917001798 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 983917001799 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 983917001800 N-terminal plug; other site 983917001801 ligand-binding site [chemical binding]; other site 983917001802 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 983917001803 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 983917001804 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 983917001805 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 983917001806 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 983917001807 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 983917001808 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 983917001809 heme binding site [chemical binding]; other site 983917001810 ferroxidase pore; other site 983917001811 ferroxidase diiron center [ion binding]; other site 983917001812 Protein required for attachment to host cells; Region: Host_attach; pfam10116 983917001813 Predicted ATPase [General function prediction only]; Region: COG4637 983917001814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917001815 Walker A/P-loop; other site 983917001816 ATP binding site [chemical binding]; other site 983917001817 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 983917001818 LemA family; Region: LemA; cl00742 983917001819 Methyltransferase domain; Region: Methyltransf_23; pfam13489 983917001820 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 983917001821 S-adenosylmethionine binding site [chemical binding]; other site 983917001822 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 983917001823 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983917001824 Soluble P-type ATPase [General function prediction only]; Region: COG4087 983917001825 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 983917001826 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 983917001827 DNA binding residues [nucleotide binding] 983917001828 dimer interface [polypeptide binding]; other site 983917001829 putative metal binding site [ion binding]; other site 983917001830 molybdenum transport protein ModD; Provisional; Region: PRK06096 983917001831 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 983917001832 active site 983917001833 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 983917001834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917001835 Walker A/P-loop; other site 983917001836 ATP binding site [chemical binding]; other site 983917001837 Q-loop/lid; other site 983917001838 ABC transporter signature motif; other site 983917001839 Walker B; other site 983917001840 D-loop; other site 983917001841 H-loop/switch region; other site 983917001842 TOBE domain; Region: TOBE; cl01440 983917001843 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 983917001844 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 983917001845 dimer interface [polypeptide binding]; other site 983917001846 conserved gate region; other site 983917001847 putative PBP binding loops; other site 983917001848 ABC-ATPase subunit interface; other site 983917001849 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 983917001850 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917001851 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 983917001852 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 983917001853 TOBE domain; Region: TOBE; cl01440 983917001854 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 983917001855 molybdenum-pterin binding domain; Region: Mop; TIGR00638 983917001856 molybdenum-pterin binding domain; Region: Mop; TIGR00638 983917001857 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 983917001858 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 983917001859 dimer interface [polypeptide binding]; other site 983917001860 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 983917001861 active site 983917001862 Fe binding site [ion binding]; other site 983917001863 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 983917001864 short chain dehydrogenase; Provisional; Region: PRK07478 983917001865 classical (c) SDRs; Region: SDR_c; cd05233 983917001866 NAD(P) binding site [chemical binding]; other site 983917001867 active site 983917001868 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 983917001869 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 983917001870 DNA binding residues [nucleotide binding] 983917001871 putative dimer interface [polypeptide binding]; other site 983917001872 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 983917001873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917001874 Coenzyme A binding pocket [chemical binding]; other site 983917001875 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 983917001876 Methyltransferase domain; Region: Methyltransf_31; pfam13847 983917001877 S-adenosylmethionine binding site [chemical binding]; other site 983917001878 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 983917001879 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917001880 Coenzyme A binding pocket [chemical binding]; other site 983917001881 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 983917001882 active site 983917001883 motif I; other site 983917001884 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 983917001885 motif II; other site 983917001886 Predicted acetyltransferase [General function prediction only]; Region: COG5628 983917001887 Cupin domain; Region: Cupin_2; cl17218 983917001888 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 983917001889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917001890 Coenzyme A binding pocket [chemical binding]; other site 983917001891 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983917001892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917001893 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 983917001894 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917001895 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 983917001896 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 983917001897 substrate binding site [chemical binding]; other site 983917001898 oxyanion hole (OAH) forming residues; other site 983917001899 trimer interface [polypeptide binding]; other site 983917001900 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 983917001901 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 983917001902 active site residue [active] 983917001903 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 983917001904 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 983917001905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917001906 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 983917001907 putative dimerization interface [polypeptide binding]; other site 983917001908 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 983917001909 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 983917001910 active site 983917001911 SAM binding site [chemical binding]; other site 983917001912 homodimer interface [polypeptide binding]; other site 983917001913 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917001914 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 983917001915 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 983917001916 Cytochrome c; Region: Cytochrom_C; cl11414 983917001917 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 983917001918 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 983917001919 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917001920 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917001921 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917001922 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 983917001923 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 983917001924 FeS/SAM binding site; other site 983917001925 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 983917001926 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917001927 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 983917001928 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 983917001929 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 983917001930 Cytochrome c; Region: Cytochrom_C; cl11414 983917001931 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 983917001932 active site 983917001933 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 983917001934 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 983917001935 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 983917001936 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 983917001937 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 983917001938 dimer interface [polypeptide binding]; other site 983917001939 tetramer interface [polypeptide binding]; other site 983917001940 PYR/PP interface [polypeptide binding]; other site 983917001941 TPP binding site [chemical binding]; other site 983917001942 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 983917001943 TPP-binding site [chemical binding]; other site 983917001944 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 983917001945 chorismate binding enzyme; Region: Chorismate_bind; cl10555 983917001946 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 983917001947 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 983917001948 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 983917001949 flagellin; Validated; Region: PRK08026 983917001950 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917001951 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917001952 heme pocket [chemical binding]; other site 983917001953 putative active site [active] 983917001954 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917001955 dimer interface [polypeptide binding]; other site 983917001956 phosphorylation site [posttranslational modification] 983917001957 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917001958 ATP binding site [chemical binding]; other site 983917001959 Mg2+ binding site [ion binding]; other site 983917001960 G-X-G motif; other site 983917001961 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917001962 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917001963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917001964 dimer interface [polypeptide binding]; other site 983917001965 putative CheW interface [polypeptide binding]; other site 983917001966 Cupin domain; Region: Cupin_2; cl17218 983917001967 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917001968 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917001969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 983917001970 Integrase core domain; Region: rve; pfam00665 983917001971 Integrase core domain; Region: rve_3; cl15866 983917001972 transposase/IS protein; Provisional; Region: PRK09183 983917001973 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 983917001974 Walker A motif; other site 983917001975 ATP binding site [chemical binding]; other site 983917001976 Walker B motif; other site 983917001977 putative ssRNA endonuclease; Provisional; Region: PRK11558 983917001978 CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI; Region: cas1_ECOLI; TIGR03638 983917001979 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 983917001980 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 983917001981 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 983917001982 CT1975-like protein; Region: Cas_CT1975; pfam09344 983917001983 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 983917001984 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 983917001985 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 983917001986 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 983917001987 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 983917001988 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 983917001989 sequence-specific DNA binding site [nucleotide binding]; other site 983917001990 salt bridge; other site 983917001991 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 983917001992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917001993 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 983917001994 DNA binding residues [nucleotide binding] 983917001995 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 983917001996 FecR protein; Region: FecR; pfam04773 983917001997 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 983917001998 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 983917001999 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917002000 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 983917002001 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 983917002002 Ligand Binding Site [chemical binding]; other site 983917002003 Molecular Tunnel; other site 983917002004 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 983917002005 Amidase; Region: Amidase; cl11426 983917002006 indole-3-acetamide amidohydrolase; Region: PLN02722 983917002007 CHASE3 domain; Region: CHASE3; pfam05227 983917002008 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 983917002009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917002010 dimer interface [polypeptide binding]; other site 983917002011 putative CheW interface [polypeptide binding]; other site 983917002012 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 983917002013 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917002014 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917002015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917002016 dimer interface [polypeptide binding]; other site 983917002017 putative CheW interface [polypeptide binding]; other site 983917002018 DNA polymerase IV; Validated; Region: PRK02406 983917002019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 983917002020 active site 983917002021 phosphorylation site [posttranslational modification] 983917002022 intermolecular recognition site; other site 983917002023 dimerization interface [polypeptide binding]; other site 983917002024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917002025 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983917002026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917002027 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 983917002028 serine transporter; Region: stp; TIGR00814 983917002029 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 983917002030 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 983917002031 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 983917002032 two-component sensor protein 983917002033 two-component sensor protein 983917002034 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 983917002035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002036 active site 983917002037 phosphorylation site [posttranslational modification] 983917002038 intermolecular recognition site; other site 983917002039 dimerization interface [polypeptide binding]; other site 983917002040 LytTr DNA-binding domain; Region: LytTR; smart00850 983917002041 PIN domain; Region: PIN_3; pfam13470 983917002042 DNA binding domain, excisionase family; Region: excise; TIGR01764 983917002043 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917002044 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 983917002045 ligand binding site [chemical binding]; other site 983917002046 flexible hinge region; other site 983917002047 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 983917002048 non-specific DNA interactions [nucleotide binding]; other site 983917002049 DNA binding site [nucleotide binding] 983917002050 sequence specific DNA binding site [nucleotide binding]; other site 983917002051 putative cAMP binding site [chemical binding]; other site 983917002052 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 983917002053 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 983917002054 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 983917002055 4Fe-4S binding domain; Region: Fer4_5; pfam12801 983917002056 MoxR-like ATPases [General function prediction only]; Region: COG0714 983917002057 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 983917002058 Walker A motif; other site 983917002059 ATP binding site [chemical binding]; other site 983917002060 Walker B motif; other site 983917002061 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 983917002062 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 983917002063 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 983917002064 D-pathway; other site 983917002065 Low-spin heme binding site [chemical binding]; other site 983917002066 K-pathway; other site 983917002067 Binuclear center (active site) [active] 983917002068 Putative proton exit pathway; other site 983917002069 Putative water exit pathway; other site 983917002070 Cytochrome c; Region: Cytochrom_C; pfam00034 983917002071 Hemerythrin-like domain; Region: Hr-like; cd12108 983917002072 Fe binding site [ion binding]; other site 983917002073 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 983917002074 active site 983917002075 nucleophile elbow; other site 983917002076 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 983917002077 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917002078 ligand binding site [chemical binding]; other site 983917002079 flexible hinge region; other site 983917002080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917002081 WHG domain; Region: WHG; pfam13305 983917002082 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 983917002083 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 983917002084 NAD(P) binding site [chemical binding]; other site 983917002085 catalytic residues [active] 983917002086 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 983917002087 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 983917002088 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917002089 Coenzyme A binding pocket [chemical binding]; other site 983917002090 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917002091 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 983917002092 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 983917002093 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 983917002094 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 983917002095 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 983917002096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917002097 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002098 dimer interface [polypeptide binding]; other site 983917002099 phosphorylation site [posttranslational modification] 983917002100 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002101 ATP binding site [chemical binding]; other site 983917002102 Mg2+ binding site [ion binding]; other site 983917002103 G-X-G motif; other site 983917002104 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 983917002105 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917002106 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 983917002107 protein binding site [polypeptide binding]; other site 983917002108 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 983917002109 protein binding site [polypeptide binding]; other site 983917002110 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 983917002111 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002112 dimer interface [polypeptide binding]; other site 983917002113 phosphorylation site [posttranslational modification] 983917002114 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002115 ATP binding site [chemical binding]; other site 983917002116 Mg2+ binding site [ion binding]; other site 983917002117 G-X-G motif; other site 983917002118 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917002119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002120 active site 983917002121 phosphorylation site [posttranslational modification] 983917002122 intermolecular recognition site; other site 983917002123 dimerization interface [polypeptide binding]; other site 983917002124 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 983917002125 DNA binding site [nucleotide binding] 983917002126 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 983917002127 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 983917002128 FMN binding site [chemical binding]; other site 983917002129 substrate binding site [chemical binding]; other site 983917002130 putative catalytic residue [active] 983917002131 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 983917002132 Hemerythrin-like domain; Region: Hr-like; cd12108 983917002133 6-phosphofructokinase; Provisional; Region: PRK14072 983917002134 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 983917002135 active site 983917002136 ADP/pyrophosphate binding site [chemical binding]; other site 983917002137 allosteric effector site; other site 983917002138 dimerization interface [polypeptide binding]; other site 983917002139 fructose-1,6-bisphosphate binding site; other site 983917002140 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917002141 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 983917002142 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 983917002143 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 983917002144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917002145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917002146 Coenzyme A binding pocket [chemical binding]; other site 983917002147 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 983917002148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917002149 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 983917002150 dimerization interface [polypeptide binding]; other site 983917002151 Lysine efflux permease [General function prediction only]; Region: COG1279 983917002152 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 983917002153 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 983917002154 heme binding site [chemical binding]; other site 983917002155 ferroxidase pore; other site 983917002156 ferroxidase diiron center [ion binding]; other site 983917002157 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 983917002158 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917002159 heat shock protein 90; Provisional; Region: PRK05218 983917002160 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002161 ATP binding site [chemical binding]; other site 983917002162 Mg2+ binding site [ion binding]; other site 983917002163 G-X-G motif; other site 983917002164 serine/threonine protein kinase; Provisional; Region: PRK11768 983917002165 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 983917002166 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 983917002167 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 983917002168 23S rRNA interface [nucleotide binding]; other site 983917002169 L3 interface [polypeptide binding]; other site 983917002170 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 983917002171 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 983917002172 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 983917002173 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 983917002174 Peptidase family M23; Region: Peptidase_M23; pfam01551 983917002175 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 983917002176 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 983917002177 active site 983917002178 HIGH motif; other site 983917002179 dimer interface [polypeptide binding]; other site 983917002180 KMSKS motif; other site 983917002181 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 983917002182 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 983917002183 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 983917002184 putative active site [active] 983917002185 dimerization interface [polypeptide binding]; other site 983917002186 putative tRNAtyr binding site [nucleotide binding]; other site 983917002187 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917002188 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917002189 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 983917002190 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 983917002191 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917002192 active site 983917002193 CoA binding site [chemical binding]; other site 983917002194 AMP binding site [chemical binding]; other site 983917002195 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 983917002196 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 983917002197 Walker A/P-loop; other site 983917002198 ATP binding site [chemical binding]; other site 983917002199 Q-loop/lid; other site 983917002200 ABC transporter signature motif; other site 983917002201 Walker B; other site 983917002202 D-loop; other site 983917002203 H-loop/switch region; other site 983917002204 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 983917002205 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 983917002206 putative ligand binding site [chemical binding]; other site 983917002207 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917002208 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 983917002209 TM-ABC transporter signature motif; other site 983917002210 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 983917002211 TM-ABC transporter signature motif; other site 983917002212 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 983917002213 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 983917002214 Walker A/P-loop; other site 983917002215 ATP binding site [chemical binding]; other site 983917002216 Q-loop/lid; other site 983917002217 ABC transporter signature motif; other site 983917002218 Walker B; other site 983917002219 D-loop; other site 983917002220 H-loop/switch region; other site 983917002221 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 983917002222 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917002223 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 983917002224 acyl-activating enzyme (AAE) consensus motif; other site 983917002225 putative AMP binding site [chemical binding]; other site 983917002226 putative active site [active] 983917002227 putative CoA binding site [chemical binding]; other site 983917002228 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917002229 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 983917002230 ligand binding site [chemical binding]; other site 983917002231 flexible hinge region; other site 983917002232 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 983917002233 putative switch regulator; other site 983917002234 non-specific DNA interactions [nucleotide binding]; other site 983917002235 DNA binding site [nucleotide binding] 983917002236 sequence specific DNA binding site [nucleotide binding]; other site 983917002237 putative cAMP binding site [chemical binding]; other site 983917002238 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983917002239 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983917002240 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983917002241 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983917002242 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983917002243 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 983917002244 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917002245 TAP-like protein; Region: Abhydrolase_4; pfam08386 983917002246 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 983917002247 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 983917002248 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 983917002249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917002250 Walker A/P-loop; other site 983917002251 ATP binding site [chemical binding]; other site 983917002252 Q-loop/lid; other site 983917002253 ABC transporter signature motif; other site 983917002254 Walker B; other site 983917002255 D-loop; other site 983917002256 H-loop/switch region; other site 983917002257 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917002258 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 983917002259 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 983917002260 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 983917002261 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 983917002262 active site 983917002263 nucleophile elbow; other site 983917002264 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 983917002265 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 983917002266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917002267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917002268 metal binding site [ion binding]; metal-binding site 983917002269 active site 983917002270 I-site; other site 983917002271 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 983917002272 Walker A motif; other site 983917002273 ATP binding site [chemical binding]; other site 983917002274 Walker B motif; other site 983917002275 arginine finger; other site 983917002276 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917002277 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917002278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917002279 dimer interface [polypeptide binding]; other site 983917002280 putative CheW interface [polypeptide binding]; other site 983917002281 HAMP domain; Region: HAMP; pfam00672 983917002282 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917002283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917002284 dimer interface [polypeptide binding]; other site 983917002285 putative CheW interface [polypeptide binding]; other site 983917002286 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917002287 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 983917002288 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917002289 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917002290 dimer interface [polypeptide binding]; other site 983917002291 putative CheW interface [polypeptide binding]; other site 983917002292 type II secretion system protein F; Region: GspF; TIGR02120 983917002293 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 983917002294 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 983917002295 type II secretion system protein E; Region: type_II_gspE; TIGR02533 983917002296 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 983917002297 Walker A motif; other site 983917002298 ATP binding site [chemical binding]; other site 983917002299 Walker B motif; other site 983917002300 type II secretion system protein D; Region: type_II_gspD; TIGR02517 983917002301 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 983917002302 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 983917002303 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 983917002304 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 983917002305 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 983917002306 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 983917002307 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 983917002308 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 983917002309 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 983917002310 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 983917002311 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 983917002312 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 983917002313 putative dimer interface [polypeptide binding]; other site 983917002314 active site pocket [active] 983917002315 putative cataytic base [active] 983917002316 threonine dehydratase; Reviewed; Region: PRK09224 983917002317 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 983917002318 tetramer interface [polypeptide binding]; other site 983917002319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917002320 catalytic residue [active] 983917002321 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 983917002322 putative Ile/Val binding site [chemical binding]; other site 983917002323 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 983917002324 putative Ile/Val binding site [chemical binding]; other site 983917002325 OsmC-like protein; Region: OsmC; cl00767 983917002326 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 983917002327 diiron binding motif [ion binding]; other site 983917002328 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 983917002329 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 983917002330 dimer interface [polypeptide binding]; other site 983917002331 conserved gate region; other site 983917002332 putative PBP binding loops; other site 983917002333 ABC-ATPase subunit interface; other site 983917002334 dipeptide transporter; Provisional; Region: PRK10913 983917002335 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 983917002336 dimer interface [polypeptide binding]; other site 983917002337 conserved gate region; other site 983917002338 putative PBP binding loops; other site 983917002339 ABC-ATPase subunit interface; other site 983917002340 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 983917002341 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917002342 Walker A/P-loop; other site 983917002343 ATP binding site [chemical binding]; other site 983917002344 Q-loop/lid; other site 983917002345 ABC transporter signature motif; other site 983917002346 Walker B; other site 983917002347 D-loop; other site 983917002348 H-loop/switch region; other site 983917002349 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917002350 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 983917002351 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917002352 Walker A/P-loop; other site 983917002353 ATP binding site [chemical binding]; other site 983917002354 Q-loop/lid; other site 983917002355 ABC transporter signature motif; other site 983917002356 Walker B; other site 983917002357 D-loop; other site 983917002358 H-loop/switch region; other site 983917002359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917002360 diaminopimelate decarboxylase; Region: lysA; TIGR01048 983917002361 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 983917002362 active site 983917002363 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983917002364 substrate binding site [chemical binding]; other site 983917002365 catalytic residues [active] 983917002366 dimer interface [polypeptide binding]; other site 983917002367 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 983917002368 putative iron binding site [ion binding]; other site 983917002369 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 983917002370 Transglycosylase; Region: Transgly; pfam00912 983917002371 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 983917002372 Competence protein A; Region: Competence_A; pfam11104 983917002373 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 983917002374 type 4 fimbrial biogenesis protein PilN 983917002375 type 4 fimbrial biogenesis protein PilN 983917002376 Pilus assembly protein, PilO; Region: PilO; pfam04350 983917002377 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 983917002378 Pilus assembly protein, PilP; Region: PilP; pfam04351 983917002379 AMIN domain; Region: AMIN; pfam11741 983917002380 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 983917002381 Secretin and TonB N terminus short domain; Region: STN; smart00965 983917002382 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 983917002383 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 983917002384 shikimate kinase; Reviewed; Region: aroK; PRK00131 983917002385 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 983917002386 ADP binding site [chemical binding]; other site 983917002387 magnesium binding site [ion binding]; other site 983917002388 putative shikimate binding site; other site 983917002389 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 983917002390 active site 983917002391 dimer interface [polypeptide binding]; other site 983917002392 metal binding site [ion binding]; metal-binding site 983917002393 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 983917002394 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 983917002395 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 983917002396 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 983917002397 active site 983917002398 dimer interface [polypeptide binding]; other site 983917002399 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 983917002400 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 983917002401 active site 983917002402 FMN binding site [chemical binding]; other site 983917002403 substrate binding site [chemical binding]; other site 983917002404 3Fe-4S cluster binding site [ion binding]; other site 983917002405 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 983917002406 domain interface; other site 983917002407 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 983917002408 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917002409 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 983917002410 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 983917002411 Walker A/P-loop; other site 983917002412 ATP binding site [chemical binding]; other site 983917002413 Q-loop/lid; other site 983917002414 ABC transporter signature motif; other site 983917002415 Walker B; other site 983917002416 D-loop; other site 983917002417 H-loop/switch region; other site 983917002418 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 983917002419 Permease; Region: Permease; pfam02405 983917002420 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 983917002421 mce related protein; Region: MCE; pfam02470 983917002422 VacJ like lipoprotein; Region: VacJ; cl01073 983917002423 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 983917002424 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 983917002425 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 983917002426 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 983917002427 putative active site [active] 983917002428 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 983917002429 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 983917002430 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 983917002431 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 983917002432 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 983917002433 Walker A motif; other site 983917002434 ATP binding site [chemical binding]; other site 983917002435 Walker B motif; other site 983917002436 arginine finger; other site 983917002437 transaldolase-like protein; Provisional; Region: PTZ00411 983917002438 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 983917002439 active site 983917002440 dimer interface [polypeptide binding]; other site 983917002441 catalytic residue [active] 983917002442 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 983917002443 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 983917002444 active site 983917002445 dimer interface [polypeptide binding]; other site 983917002446 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 983917002447 dimer interface [polypeptide binding]; other site 983917002448 active site 983917002449 Cytochrome c; Region: Cytochrom_C; cl11414 983917002450 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 983917002451 conserved cys residue [active] 983917002452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917002453 Isochorismatase family; Region: Isochorismatase; pfam00857 983917002454 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 983917002455 catalytic triad [active] 983917002456 conserved cis-peptide bond; other site 983917002457 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 983917002458 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 983917002459 metal binding site [ion binding]; metal-binding site 983917002460 putative dimer interface [polypeptide binding]; other site 983917002461 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 983917002462 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 983917002463 putative [4Fe-4S] binding site [ion binding]; other site 983917002464 putative molybdopterin cofactor binding site [chemical binding]; other site 983917002465 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 983917002466 putative molybdopterin cofactor binding site; other site 983917002467 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 983917002468 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 983917002469 Acyl CoA binding protein; Region: ACBP; pfam00887 983917002470 acyl-CoA binding pocket [chemical binding]; other site 983917002471 CoA binding site [chemical binding]; other site 983917002472 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 983917002473 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 983917002474 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 983917002475 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917002476 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917002477 Bacterial transcriptional repressor; Region: TetR; pfam13972 983917002478 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 983917002479 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 983917002480 Walker A/P-loop; other site 983917002481 ATP binding site [chemical binding]; other site 983917002482 Q-loop/lid; other site 983917002483 ABC transporter signature motif; other site 983917002484 Walker B; other site 983917002485 D-loop; other site 983917002486 H-loop/switch region; other site 983917002487 ABC-2 type transporter; Region: ABC2_membrane; cl17235 983917002488 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 983917002489 Clp protease; Region: CLP_protease; pfam00574 983917002490 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 983917002491 oligomer interface [polypeptide binding]; other site 983917002492 active site residues [active] 983917002493 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 983917002494 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 983917002495 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 983917002496 hinge; other site 983917002497 active site 983917002498 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 983917002499 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 983917002500 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 983917002501 histidinol dehydrogenase; Region: hisD; TIGR00069 983917002502 NAD binding site [chemical binding]; other site 983917002503 dimerization interface [polypeptide binding]; other site 983917002504 product binding site; other site 983917002505 substrate binding site [chemical binding]; other site 983917002506 zinc binding site [ion binding]; other site 983917002507 catalytic residues [active] 983917002508 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 983917002509 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 983917002510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917002511 homodimer interface [polypeptide binding]; other site 983917002512 catalytic residue [active] 983917002513 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 983917002514 4-fold oligomerization interface [polypeptide binding]; other site 983917002515 putative active site pocket [active] 983917002516 metal binding residues [ion binding]; metal-binding site 983917002517 3-fold/trimer interface [polypeptide binding]; other site 983917002518 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 983917002519 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 983917002520 putative active site [active] 983917002521 oxyanion strand; other site 983917002522 catalytic triad [active] 983917002523 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 983917002524 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 983917002525 catalytic residues [active] 983917002526 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 983917002527 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 983917002528 substrate binding site [chemical binding]; other site 983917002529 glutamase interaction surface [polypeptide binding]; other site 983917002530 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 983917002531 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 983917002532 S-adenosylmethionine binding site [chemical binding]; other site 983917002533 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 983917002534 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 983917002535 active site 983917002536 (T/H)XGH motif; other site 983917002537 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 983917002538 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 983917002539 putative active site [active] 983917002540 catalytic residue [active] 983917002541 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 983917002542 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 983917002543 5S rRNA interface [nucleotide binding]; other site 983917002544 CTC domain interface [polypeptide binding]; other site 983917002545 L16 interface [polypeptide binding]; other site 983917002546 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 983917002547 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 983917002548 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917002549 active site 983917002550 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 983917002551 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 983917002552 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 983917002553 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 983917002554 binding surface 983917002555 TPR motif; other site 983917002556 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917002557 TPR motif; other site 983917002558 binding surface 983917002559 TPR repeat; Region: TPR_11; pfam13414 983917002560 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917002561 binding surface 983917002562 TPR motif; other site 983917002563 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 983917002564 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 983917002565 DNA binding site [nucleotide binding] 983917002566 catalytic residue [active] 983917002567 H2TH interface [polypeptide binding]; other site 983917002568 putative catalytic residues [active] 983917002569 turnover-facilitating residue; other site 983917002570 intercalation triad [nucleotide binding]; other site 983917002571 8OG recognition residue [nucleotide binding]; other site 983917002572 putative reading head residues; other site 983917002573 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 983917002574 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 983917002575 Dynamin family; Region: Dynamin_N; pfam00350 983917002576 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 983917002577 G1 box; other site 983917002578 GTP/Mg2+ binding site [chemical binding]; other site 983917002579 G2 box; other site 983917002580 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 983917002581 G3 box; other site 983917002582 Switch II region; other site 983917002583 GTP/Mg2+ binding site [chemical binding]; other site 983917002584 G4 box; other site 983917002585 G5 box; other site 983917002586 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 983917002587 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 983917002588 minor groove reading motif; other site 983917002589 helix-hairpin-helix signature motif; other site 983917002590 active site 983917002591 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 983917002592 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 983917002593 DNA binding and oxoG recognition site [nucleotide binding] 983917002594 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 983917002595 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 983917002596 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 983917002597 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 983917002598 Walker A/P-loop; other site 983917002599 ATP binding site [chemical binding]; other site 983917002600 Q-loop/lid; other site 983917002601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917002602 ABC transporter signature motif; other site 983917002603 Walker B; other site 983917002604 D-loop; other site 983917002605 H-loop/switch region; other site 983917002606 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 983917002607 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 983917002608 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 983917002609 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 983917002610 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917002611 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 983917002612 substrate binding pocket [chemical binding]; other site 983917002613 membrane-bound complex binding site; other site 983917002614 hinge residues; other site 983917002615 PAS fold; Region: PAS_4; pfam08448 983917002616 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917002617 putative active site [active] 983917002618 heme pocket [chemical binding]; other site 983917002619 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002620 dimer interface [polypeptide binding]; other site 983917002621 phosphorylation site [posttranslational modification] 983917002622 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002623 ATP binding site [chemical binding]; other site 983917002624 Mg2+ binding site [ion binding]; other site 983917002625 G-X-G motif; other site 983917002626 Response regulator receiver domain; Region: Response_reg; pfam00072 983917002627 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002628 active site 983917002629 phosphorylation site [posttranslational modification] 983917002630 intermolecular recognition site; other site 983917002631 dimerization interface [polypeptide binding]; other site 983917002632 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 983917002633 homodimer interface [polypeptide binding]; other site 983917002634 chemical substrate binding site [chemical binding]; other site 983917002635 oligomer interface [polypeptide binding]; other site 983917002636 metal binding site [ion binding]; metal-binding site 983917002637 Part of AAA domain; Region: AAA_19; pfam13245 983917002638 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 983917002639 Uncharacterized conserved protein [Function unknown]; Region: COG3410 983917002640 Predicted transcriptional regulator [Transcription]; Region: COG2932 983917002641 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 983917002642 Catalytic site [active] 983917002643 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 983917002644 active site 983917002645 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 983917002646 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 983917002647 putative substrate binding site [chemical binding]; other site 983917002648 nucleotide binding site [chemical binding]; other site 983917002649 nucleotide binding site [chemical binding]; other site 983917002650 homodimer interface [polypeptide binding]; other site 983917002651 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 983917002652 D-galactonate transporter; Region: 2A0114; TIGR00893 983917002653 putative substrate translocation pore; other site 983917002654 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 983917002655 D-galactonate transporter; Region: 2A0114; TIGR00893 983917002656 putative substrate translocation pore; other site 983917002657 membrane protein FdrA; Validated; Region: PRK06091 983917002658 CoA binding domain; Region: CoA_binding; pfam02629 983917002659 CoA-ligase; Region: Ligase_CoA; pfam00549 983917002660 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 983917002661 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 983917002662 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 983917002663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917002664 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 983917002665 dimerization interface [polypeptide binding]; other site 983917002666 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917002667 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917002668 Uncharacterized conserved protein [Function unknown]; Region: COG3791 983917002669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917002670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917002671 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 983917002672 putative effector binding pocket; other site 983917002673 dimerization interface [polypeptide binding]; other site 983917002674 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917002675 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983917002676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 983917002677 active site 983917002678 phosphorylation site [posttranslational modification] 983917002679 intermolecular recognition site; other site 983917002680 dimerization interface [polypeptide binding]; other site 983917002681 LytTr DNA-binding domain; Region: LytTR; smart00850 983917002682 Histidine kinase; Region: His_kinase; pfam06580 983917002683 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002684 ATP binding site [chemical binding]; other site 983917002685 Mg2+ binding site [ion binding]; other site 983917002686 G-X-G motif; other site 983917002687 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 983917002688 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 983917002689 Protein export membrane protein; Region: SecD_SecF; cl14618 983917002690 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 983917002691 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917002692 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917002693 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 983917002694 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 983917002695 dimerization interface [polypeptide binding]; other site 983917002696 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002697 dimer interface [polypeptide binding]; other site 983917002698 phosphorylation site [posttranslational modification] 983917002699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002700 ATP binding site [chemical binding]; other site 983917002701 G-X-G motif; other site 983917002702 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 983917002703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002704 active site 983917002705 phosphorylation site [posttranslational modification] 983917002706 intermolecular recognition site; other site 983917002707 dimerization interface [polypeptide binding]; other site 983917002708 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 983917002709 DNA binding site [nucleotide binding] 983917002710 Predicted transcriptional regulators [Transcription]; Region: COG1695 983917002711 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 983917002712 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 983917002713 Radical SAM superfamily; Region: Radical_SAM; pfam04055 983917002714 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 983917002715 FeS/SAM binding site; other site 983917002716 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 983917002717 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917002718 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 983917002719 dimerization interface [polypeptide binding]; other site 983917002720 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917002721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917002722 dimer interface [polypeptide binding]; other site 983917002723 putative CheW interface [polypeptide binding]; other site 983917002724 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 983917002725 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 983917002726 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 983917002727 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 983917002728 active site 983917002729 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917002730 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917002731 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 983917002732 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 983917002733 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917002734 active site 983917002735 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 983917002736 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 983917002737 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 983917002738 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 983917002739 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 983917002740 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 983917002741 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 983917002742 substrate binding site [chemical binding]; other site 983917002743 oxyanion hole (OAH) forming residues; other site 983917002744 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 983917002745 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 983917002746 dimer interface [polypeptide binding]; other site 983917002747 active site 983917002748 enoyl-CoA hydratase; Provisional; Region: PRK06688 983917002749 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 983917002750 substrate binding site [chemical binding]; other site 983917002751 oxyanion hole (OAH) forming residues; other site 983917002752 trimer interface [polypeptide binding]; other site 983917002753 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; cl15762 983917002754 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 983917002755 active site 983917002756 catalytic triad [active] 983917002757 oxyanion hole [active] 983917002758 short chain dehydrogenase; Provisional; Region: PRK08278 983917002759 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 983917002760 NAD(P) binding site [chemical binding]; other site 983917002761 homodimer interface [polypeptide binding]; other site 983917002762 active site 983917002763 Predicted membrane protein [Function unknown]; Region: COG2119 983917002764 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 983917002765 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 983917002766 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 983917002767 Dihaem cytochrome c; Region: DHC; pfam09626 983917002768 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 983917002769 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 983917002770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002771 active site 983917002772 phosphorylation site [posttranslational modification] 983917002773 intermolecular recognition site; other site 983917002774 dimerization interface [polypeptide binding]; other site 983917002775 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 983917002776 DNA binding site [nucleotide binding] 983917002777 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002778 dimer interface [polypeptide binding]; other site 983917002779 phosphorylation site [posttranslational modification] 983917002780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002781 ATP binding site [chemical binding]; other site 983917002782 Mg2+ binding site [ion binding]; other site 983917002783 G-X-G motif; other site 983917002784 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 983917002785 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 983917002786 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 983917002787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917002788 Walker A/P-loop; other site 983917002789 ATP binding site [chemical binding]; other site 983917002790 Q-loop/lid; other site 983917002791 ABC transporter signature motif; other site 983917002792 Walker B; other site 983917002793 D-loop; other site 983917002794 H-loop/switch region; other site 983917002795 cell density-dependent motility repressor; Provisional; Region: PRK10082 983917002796 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917002797 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 983917002798 dimerization interface [polypeptide binding]; other site 983917002799 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 983917002800 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 983917002801 substrate binding pocket [chemical binding]; other site 983917002802 membrane-bound complex binding site; other site 983917002803 hinge residues; other site 983917002804 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 983917002805 dimer interface [polypeptide binding]; other site 983917002806 conserved gate region; other site 983917002807 putative PBP binding loops; other site 983917002808 ABC-ATPase subunit interface; other site 983917002809 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 983917002810 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 983917002811 dimer interface [polypeptide binding]; other site 983917002812 conserved gate region; other site 983917002813 putative PBP binding loops; other site 983917002814 ABC-ATPase subunit interface; other site 983917002815 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 983917002816 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 983917002817 Walker A/P-loop; other site 983917002818 ATP binding site [chemical binding]; other site 983917002819 Q-loop/lid; other site 983917002820 ABC transporter signature motif; other site 983917002821 Walker B; other site 983917002822 D-loop; other site 983917002823 H-loop/switch region; other site 983917002824 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917002825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917002826 metal binding site [ion binding]; metal-binding site 983917002827 active site 983917002828 I-site; other site 983917002829 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917002830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917002831 metal binding site [ion binding]; metal-binding site 983917002832 active site 983917002833 I-site; other site 983917002834 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 983917002835 active site 983917002836 substrate binding pocket [chemical binding]; other site 983917002837 dimer interface [polypeptide binding]; other site 983917002838 LabA_like proteins; Region: LabA_like/DUF88; cl10034 983917002839 putative metal binding site [ion binding]; other site 983917002840 Uncharacterized conserved protein [Function unknown]; Region: COG1432 983917002841 heat shock protein HtpX; Provisional; Region: PRK05457 983917002842 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 983917002843 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 983917002844 dimer interface [polypeptide binding]; other site 983917002845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917002846 catalytic residue [active] 983917002847 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 983917002848 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917002849 putative substrate translocation pore; other site 983917002850 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 983917002851 active site 983917002852 zinc binding site [ion binding]; other site 983917002853 cell division protein MraZ; Reviewed; Region: PRK00326 983917002854 MraZ protein; Region: MraZ; pfam02381 983917002855 MraZ protein; Region: MraZ; pfam02381 983917002856 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 983917002857 MraW methylase family; Region: Methyltransf_5; cl17771 983917002858 Cell division protein FtsL; Region: FtsL; pfam04999 983917002859 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 983917002860 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 983917002861 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 983917002862 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 983917002863 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983917002864 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983917002865 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917002866 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 983917002867 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983917002868 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983917002869 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917002870 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 983917002871 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 983917002872 Mg++ binding site [ion binding]; other site 983917002873 putative catalytic motif [active] 983917002874 putative substrate binding site [chemical binding]; other site 983917002875 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 983917002876 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983917002877 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917002878 cell division protein FtsW; Region: ftsW; TIGR02614 983917002879 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 983917002880 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 983917002881 active site 983917002882 homodimer interface [polypeptide binding]; other site 983917002883 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 983917002884 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983917002885 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983917002886 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917002887 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 983917002888 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 983917002889 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917002890 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 983917002891 Cell division protein FtsQ; Region: FtsQ; pfam03799 983917002892 cell division protein FtsA; Region: ftsA; TIGR01174 983917002893 Cell division protein FtsA; Region: FtsA; smart00842 983917002894 Cell division protein FtsA; Region: FtsA; pfam14450 983917002895 cell division protein FtsZ; Validated; Region: PRK09330 983917002896 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 983917002897 nucleotide binding site [chemical binding]; other site 983917002898 SulA interaction site; other site 983917002899 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917002900 Peptidase family M48; Region: Peptidase_M48; cl12018 983917002901 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 983917002902 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 983917002903 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 983917002904 FAD binding pocket [chemical binding]; other site 983917002905 FAD binding motif [chemical binding]; other site 983917002906 phosphate binding motif [ion binding]; other site 983917002907 beta-alpha-beta structure motif; other site 983917002908 NAD binding pocket [chemical binding]; other site 983917002909 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 983917002910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917002911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917002912 metal binding site [ion binding]; metal-binding site 983917002913 active site 983917002914 I-site; other site 983917002915 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917002916 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917002917 ligand binding site [chemical binding]; other site 983917002918 B12 binding domain; Region: B12-binding; pfam02310 983917002919 B12 binding site [chemical binding]; other site 983917002920 Radical SAM superfamily; Region: Radical_SAM; pfam04055 983917002921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 983917002922 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 983917002923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917002924 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917002925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917002926 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983917002927 NAD(P) binding site [chemical binding]; other site 983917002928 active site 983917002929 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917002930 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917002931 putative active site [active] 983917002932 heme pocket [chemical binding]; other site 983917002933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002934 dimer interface [polypeptide binding]; other site 983917002935 phosphorylation site [posttranslational modification] 983917002936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002937 ATP binding site [chemical binding]; other site 983917002938 Mg2+ binding site [ion binding]; other site 983917002939 G-X-G motif; other site 983917002940 Response regulator receiver domain; Region: Response_reg; pfam00072 983917002941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002942 active site 983917002943 phosphorylation site [posttranslational modification] 983917002944 intermolecular recognition site; other site 983917002945 dimerization interface [polypeptide binding]; other site 983917002946 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 983917002947 putative hydrophobic ligand binding site [chemical binding]; other site 983917002948 RibD C-terminal domain; Region: RibD_C; cl17279 983917002949 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 983917002950 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 983917002951 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 983917002952 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 983917002953 active site 983917002954 catalytic tetrad [active] 983917002955 2-isopropylmalate synthase; Validated; Region: PRK03739 983917002956 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 983917002957 active site 983917002958 catalytic residues [active] 983917002959 metal binding site [ion binding]; metal-binding site 983917002960 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 983917002961 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917002962 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917002963 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 983917002964 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 983917002965 S-adenosylmethionine binding site [chemical binding]; other site 983917002966 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 983917002967 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 983917002968 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 983917002969 active site 983917002970 catalytic site [active] 983917002971 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 983917002972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917002973 active site 983917002974 phosphorylation site [posttranslational modification] 983917002975 intermolecular recognition site; other site 983917002976 dimerization interface [polypeptide binding]; other site 983917002977 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 983917002978 Walker A motif; other site 983917002979 ATP binding site [chemical binding]; other site 983917002980 Walker B motif; other site 983917002981 arginine finger; other site 983917002982 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917002983 sensory histidine kinase AtoS; Provisional; Region: PRK11360 983917002984 HAMP domain; Region: HAMP; pfam00672 983917002985 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917002986 putative active site [active] 983917002987 heme pocket [chemical binding]; other site 983917002988 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917002989 dimer interface [polypeptide binding]; other site 983917002990 phosphorylation site [posttranslational modification] 983917002991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917002992 ATP binding site [chemical binding]; other site 983917002993 Mg2+ binding site [ion binding]; other site 983917002994 G-X-G motif; other site 983917002995 Coenzyme A transferase; Region: CoA_trans; cl17247 983917002996 Coenzyme A transferase; Region: CoA_trans; cl17247 983917002997 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 983917002998 putative acyltransferase; Provisional; Region: PRK05790 983917002999 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 983917003000 dimer interface [polypeptide binding]; other site 983917003001 active site 983917003002 propionate/acetate kinase; Provisional; Region: PRK12379 983917003003 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 983917003004 phosphate acetyltransferase; Reviewed; Region: PRK05632 983917003005 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 983917003006 DRTGG domain; Region: DRTGG; pfam07085 983917003007 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 983917003008 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917003009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917003010 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 983917003011 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 983917003012 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 983917003013 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917003014 catalytic residue [active] 983917003015 allantoate amidohydrolase; Reviewed; Region: PRK12893 983917003016 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 983917003017 active site 983917003018 metal binding site [ion binding]; metal-binding site 983917003019 dimer interface [polypeptide binding]; other site 983917003020 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 983917003021 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 983917003022 metal binding site [ion binding]; metal-binding site 983917003023 putative dimer interface [polypeptide binding]; other site 983917003024 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917003025 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 983917003026 AsnC family; Region: AsnC_trans_reg; pfam01037 983917003027 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983917003028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917003029 NAD(P) binding site [chemical binding]; other site 983917003030 active site 983917003031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917003032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917003033 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 983917003034 dimerization interface [polypeptide binding]; other site 983917003035 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 983917003036 dimerization interface [polypeptide binding]; other site 983917003037 substrate binding site [chemical binding]; other site 983917003038 active site 983917003039 calcium binding site [ion binding]; other site 983917003040 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 983917003041 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 983917003042 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 983917003043 amidohydrolase; Provisional; Region: PRK12393 983917003044 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 983917003045 active site 983917003046 putative substrate binding pocket [chemical binding]; other site 983917003047 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917003048 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 983917003049 dimerization interface [polypeptide binding]; other site 983917003050 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917003051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917003052 dimer interface [polypeptide binding]; other site 983917003053 putative CheW interface [polypeptide binding]; other site 983917003054 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 983917003055 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 983917003056 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 983917003057 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 983917003058 Walker A motif; other site 983917003059 ATP binding site [chemical binding]; other site 983917003060 Walker B motif; other site 983917003061 arginine finger; other site 983917003062 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 983917003063 Dienelactone hydrolase family; Region: DLH; pfam01738 983917003064 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 983917003065 active site 983917003066 putative DNA-binding cleft [nucleotide binding]; other site 983917003067 dimer interface [polypeptide binding]; other site 983917003068 BON domain; Region: BON; cl02771 983917003069 Response regulator receiver domain; Region: Response_reg; pfam00072 983917003070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917003071 active site 983917003072 phosphorylation site [posttranslational modification] 983917003073 intermolecular recognition site; other site 983917003074 dimerization interface [polypeptide binding]; other site 983917003075 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917003076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917003077 active site 983917003078 phosphorylation site [posttranslational modification] 983917003079 intermolecular recognition site; other site 983917003080 dimerization interface [polypeptide binding]; other site 983917003081 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 983917003082 DNA binding residues [nucleotide binding] 983917003083 dimerization interface [polypeptide binding]; other site 983917003084 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 983917003085 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 983917003086 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 983917003087 putative acyl-acceptor binding pocket; other site 983917003088 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 983917003089 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 983917003090 purine monophosphate binding site [chemical binding]; other site 983917003091 dimer interface [polypeptide binding]; other site 983917003092 putative catalytic residues [active] 983917003093 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 983917003094 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 983917003095 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 983917003096 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 983917003097 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 983917003098 FMN binding site [chemical binding]; other site 983917003099 active site 983917003100 catalytic residues [active] 983917003101 substrate binding site [chemical binding]; other site 983917003102 Predicted membrane protein [Function unknown]; Region: COG1238 983917003103 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 983917003104 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 983917003105 active site 983917003106 Zn binding site [ion binding]; other site 983917003107 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 983917003108 nucleophile elbow; other site 983917003109 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 983917003110 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 983917003111 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 983917003112 feedback inhibition sensing region; other site 983917003113 homohexameric interface [polypeptide binding]; other site 983917003114 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 983917003115 nucleotide binding site [chemical binding]; other site 983917003116 N-acetyl-L-glutamate binding site [chemical binding]; other site 983917003117 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 983917003118 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 983917003119 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 983917003120 motif II; other site 983917003121 division inhibitor protein; Provisional; Region: slmA; PRK09480 983917003122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917003123 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 983917003124 putative active site [active] 983917003125 putative metal binding site [ion binding]; other site 983917003126 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 983917003127 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 983917003128 AAA domain; Region: AAA_14; pfam13173 983917003129 Walker A motif; other site 983917003130 ATP binding site [chemical binding]; other site 983917003131 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 983917003132 active site 983917003133 8-oxo-dGMP binding site [chemical binding]; other site 983917003134 nudix motif; other site 983917003135 metal binding site [ion binding]; metal-binding site 983917003136 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 983917003137 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 983917003138 metal binding site [ion binding]; metal-binding site 983917003139 Predicted membrane protein [Function unknown]; Region: COG3671 983917003140 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 983917003141 nucleotide binding site/active site [active] 983917003142 HIT family signature motif; other site 983917003143 catalytic residue [active] 983917003144 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 983917003145 sec-independent translocase; Provisional; Region: tatB; PRK01919 983917003146 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 983917003147 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917003148 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 983917003149 protein binding site [polypeptide binding]; other site 983917003150 Uncharacterized conserved protein [Function unknown]; Region: COG0327 983917003151 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 983917003152 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 983917003153 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 983917003154 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 983917003155 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 983917003156 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 983917003157 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 983917003158 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 983917003159 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 983917003160 [2Fe-2S] cluster binding site [ion binding]; other site 983917003161 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 983917003162 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 983917003163 Qi binding site; other site 983917003164 intrachain domain interface; other site 983917003165 interchain domain interface [polypeptide binding]; other site 983917003166 heme bH binding site [chemical binding]; other site 983917003167 heme bL binding site [chemical binding]; other site 983917003168 Qo binding site; other site 983917003169 interchain domain interface [polypeptide binding]; other site 983917003170 intrachain domain interface; other site 983917003171 Qi binding site; other site 983917003172 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 983917003173 Qo binding site; other site 983917003174 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 983917003175 stringent starvation protein A; Provisional; Region: sspA; PRK09481 983917003176 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 983917003177 C-terminal domain interface [polypeptide binding]; other site 983917003178 putative GSH binding site (G-site) [chemical binding]; other site 983917003179 dimer interface [polypeptide binding]; other site 983917003180 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 983917003181 dimer interface [polypeptide binding]; other site 983917003182 N-terminal domain interface [polypeptide binding]; other site 983917003183 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 983917003184 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 983917003185 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 983917003186 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 983917003187 SEC-C motif; Region: SEC-C; pfam02810 983917003188 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 983917003189 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 983917003190 active site 983917003191 catalytic residues [active] 983917003192 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 983917003193 PA/protease or protease-like domain interface [polypeptide binding]; other site 983917003194 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 983917003195 catalytic residues [active] 983917003196 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 983917003197 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 983917003198 heterotetramer interface [polypeptide binding]; other site 983917003199 active site pocket [active] 983917003200 cleavage site 983917003201 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 983917003202 putative substrate translocation pore; other site 983917003203 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 983917003204 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 983917003205 putative active site [active] 983917003206 catalytic site [active] 983917003207 putative metal binding site [ion binding]; other site 983917003208 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 983917003209 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 983917003210 Walker A/P-loop; other site 983917003211 ATP binding site [chemical binding]; other site 983917003212 Q-loop/lid; other site 983917003213 ABC transporter signature motif; other site 983917003214 Walker B; other site 983917003215 D-loop; other site 983917003216 H-loop/switch region; other site 983917003217 TOBE domain; Region: TOBE_2; pfam08402 983917003218 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 983917003219 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 983917003220 dimer interface [polypeptide binding]; other site 983917003221 conserved gate region; other site 983917003222 putative PBP binding loops; other site 983917003223 ABC-ATPase subunit interface; other site 983917003224 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 983917003225 dimer interface [polypeptide binding]; other site 983917003226 conserved gate region; other site 983917003227 ABC-ATPase subunit interface; other site 983917003228 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917003229 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 983917003230 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 983917003231 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 983917003232 FAD binding domain; Region: FAD_binding_4; pfam01565 983917003233 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 983917003234 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 983917003235 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 983917003236 Cysteine-rich domain; Region: CCG; pfam02754 983917003237 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 983917003238 PEP-CTERM motif; Region: VPEP; pfam07589 983917003239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 983917003240 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 983917003241 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 983917003242 S-adenosylmethionine binding site [chemical binding]; other site 983917003243 Tim44-like domain; Region: Tim44; cl09208 983917003244 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 983917003245 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 983917003246 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 983917003247 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 983917003248 SLBB domain; Region: SLBB; pfam10531 983917003249 chain length determinant protein EpsF; Region: EpsF; TIGR03017 983917003250 Chain length determinant protein; Region: Wzz; pfam02706 983917003251 Chain length determinant protein; Region: Wzz; cl15801 983917003252 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 983917003253 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 983917003254 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 983917003255 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 983917003256 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 983917003257 EpsI family protein; Region: EpsI_fam; TIGR02914 983917003258 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 983917003259 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 983917003260 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 983917003261 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 983917003262 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 983917003263 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 983917003264 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 983917003265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917003266 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 983917003267 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917003268 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 983917003269 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 983917003270 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 983917003271 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 983917003272 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 983917003273 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 983917003274 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 983917003275 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 983917003276 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 983917003277 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 983917003278 Substrate binding site; other site 983917003279 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 983917003280 UDP-glucose 4-epimerase; Region: PLN02240 983917003281 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 983917003282 NAD binding site [chemical binding]; other site 983917003283 homodimer interface [polypeptide binding]; other site 983917003284 active site 983917003285 substrate binding site [chemical binding]; other site 983917003286 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 983917003287 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 983917003288 Bacterial sugar transferase; Region: Bac_transf; pfam02397 983917003289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 983917003290 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 983917003291 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 983917003292 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 983917003293 Uncharacterized conserved protein [Function unknown]; Region: COG2928 983917003294 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 983917003295 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 983917003296 dimer interface [polypeptide binding]; other site 983917003297 anticodon binding site; other site 983917003298 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 983917003299 homodimer interface [polypeptide binding]; other site 983917003300 motif 1; other site 983917003301 active site 983917003302 motif 2; other site 983917003303 GAD domain; Region: GAD; pfam02938 983917003304 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 983917003305 motif 3; other site 983917003306 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 983917003307 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 983917003308 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 983917003309 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 983917003310 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 983917003311 putative catalytic site [active] 983917003312 putative metal binding site [ion binding]; other site 983917003313 putative phosphate binding site [ion binding]; other site 983917003314 cardiolipin synthase 2; Provisional; Region: PRK11263 983917003315 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 983917003316 putative active site [active] 983917003317 catalytic site [active] 983917003318 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917003319 putative active site [active] 983917003320 catalytic site [active] 983917003321 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 983917003322 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 983917003323 peptide binding site [polypeptide binding]; other site 983917003324 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 983917003325 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 983917003326 dimer interface [polypeptide binding]; other site 983917003327 conserved gate region; other site 983917003328 putative PBP binding loops; other site 983917003329 ABC-ATPase subunit interface; other site 983917003330 dipeptide transporter; Provisional; Region: PRK10913 983917003331 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 983917003332 dimer interface [polypeptide binding]; other site 983917003333 conserved gate region; other site 983917003334 putative PBP binding loops; other site 983917003335 ABC-ATPase subunit interface; other site 983917003336 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 983917003337 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917003338 Walker A/P-loop; other site 983917003339 ATP binding site [chemical binding]; other site 983917003340 Q-loop/lid; other site 983917003341 ABC transporter signature motif; other site 983917003342 Walker B; other site 983917003343 D-loop; other site 983917003344 H-loop/switch region; other site 983917003345 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917003346 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 983917003347 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917003348 Walker A/P-loop; other site 983917003349 ATP binding site [chemical binding]; other site 983917003350 Q-loop/lid; other site 983917003351 ABC transporter signature motif; other site 983917003352 Walker B; other site 983917003353 D-loop; other site 983917003354 H-loop/switch region; other site 983917003355 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 983917003356 Protein of unknown function (DUF805); Region: DUF805; pfam05656 983917003357 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 983917003358 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 983917003359 CoA binding domain; Region: CoA_binding_2; pfam13380 983917003360 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 983917003361 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 983917003362 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917003363 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917003364 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 983917003365 Ligand Binding Site [chemical binding]; other site 983917003366 ATP-dependent DNA ligase; Validated; Region: PRK09247 983917003367 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 983917003368 active site 983917003369 DNA binding site [nucleotide binding] 983917003370 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 983917003371 DNA binding site [nucleotide binding] 983917003372 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 983917003373 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 983917003374 translocation protein TolB; Provisional; Region: tolB; PRK02889 983917003375 TolB amino-terminal domain; Region: TolB_N; pfam04052 983917003376 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 983917003377 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 983917003378 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 983917003379 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 983917003380 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917003381 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917003382 ligand binding site [chemical binding]; other site 983917003383 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 983917003384 Tetratricopeptide repeat; Region: TPR_6; pfam13174 983917003385 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 983917003386 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 983917003387 putative ATP binding site [chemical binding]; other site 983917003388 putative substrate interface [chemical binding]; other site 983917003389 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 983917003390 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 983917003391 N- and C-terminal domain interface [polypeptide binding]; other site 983917003392 active site 983917003393 MgATP binding site [chemical binding]; other site 983917003394 catalytic site [active] 983917003395 metal binding site [ion binding]; metal-binding site 983917003396 xylulose binding site [chemical binding]; other site 983917003397 putative homodimer interface [polypeptide binding]; other site 983917003398 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 983917003399 intersubunit interface [polypeptide binding]; other site 983917003400 active site 983917003401 Zn2+ binding site [ion binding]; other site 983917003402 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 983917003403 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 983917003404 inhibitor-cofactor binding pocket; inhibition site 983917003405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003406 catalytic residue [active] 983917003407 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 983917003408 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 983917003409 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983917003410 catalytic residue [active] 983917003411 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 983917003412 FAD binding domain; Region: FAD_binding_4; pfam01565 983917003413 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 983917003414 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 983917003415 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 983917003416 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 983917003417 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 983917003418 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 983917003419 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 983917003420 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 983917003421 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917003422 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917003423 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 983917003424 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 983917003425 NAD(P) binding site [chemical binding]; other site 983917003426 LDH/MDH dimer interface [polypeptide binding]; other site 983917003427 substrate binding site [chemical binding]; other site 983917003428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917003429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917003430 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 983917003431 putative dimerization interface [polypeptide binding]; other site 983917003432 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 983917003433 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 983917003434 inhibitor-cofactor binding pocket; inhibition site 983917003435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003436 catalytic residue [active] 983917003437 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 983917003438 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 983917003439 putative metal binding site [ion binding]; other site 983917003440 putative homodimer interface [polypeptide binding]; other site 983917003441 putative homotetramer interface [polypeptide binding]; other site 983917003442 putative homodimer-homodimer interface [polypeptide binding]; other site 983917003443 putative allosteric switch controlling residues; other site 983917003444 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 983917003445 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 983917003446 substrate binding site [chemical binding]; other site 983917003447 catalytic Zn binding site [ion binding]; other site 983917003448 NAD binding site [chemical binding]; other site 983917003449 structural Zn binding site [ion binding]; other site 983917003450 dimer interface [polypeptide binding]; other site 983917003451 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 983917003452 S-formylglutathione hydrolase; Region: PLN02442 983917003453 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 983917003454 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 983917003455 G1 box; other site 983917003456 putative GEF interaction site [polypeptide binding]; other site 983917003457 GTP/Mg2+ binding site [chemical binding]; other site 983917003458 Switch I region; other site 983917003459 G2 box; other site 983917003460 G3 box; other site 983917003461 Switch II region; other site 983917003462 G4 box; other site 983917003463 G5 box; other site 983917003464 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 983917003465 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 983917003466 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 983917003467 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 983917003468 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 983917003469 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 983917003470 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917003471 catalytic residue [active] 983917003472 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 983917003473 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 983917003474 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 983917003475 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 983917003476 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 983917003477 4Fe-4S binding domain; Region: Fer4; cl02805 983917003478 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 983917003479 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 983917003480 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 983917003481 [4Fe-4S] binding site [ion binding]; other site 983917003482 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 983917003483 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 983917003484 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 983917003485 molybdopterin cofactor binding site; other site 983917003486 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 983917003487 Staphylococcal nuclease homologues; Region: SNc; smart00318 983917003488 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 983917003489 Catalytic site; other site 983917003490 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917003491 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917003492 dimer interface [polypeptide binding]; other site 983917003493 putative CheW interface [polypeptide binding]; other site 983917003494 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 983917003495 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 983917003496 putative NAD(P) binding site [chemical binding]; other site 983917003497 dimer interface [polypeptide binding]; other site 983917003498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917003499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917003500 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 983917003501 putative effector binding pocket; other site 983917003502 dimerization interface [polypeptide binding]; other site 983917003503 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 983917003504 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 983917003505 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 983917003506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 983917003507 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 983917003508 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 983917003509 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 983917003510 carboxyltransferase (CT) interaction site; other site 983917003511 biotinylation site [posttranslational modification]; other site 983917003512 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 983917003513 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 983917003514 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 983917003515 Predicted acyl esterases [General function prediction only]; Region: COG2936 983917003516 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 983917003517 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983917003518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917003519 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 983917003520 active site residue [active] 983917003521 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 983917003522 4Fe-4S binding domain; Region: Fer4_5; pfam12801 983917003523 4Fe-4S binding domain; Region: Fer4; pfam00037 983917003524 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 983917003525 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 983917003526 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 983917003527 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 983917003528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917003529 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 983917003530 dimerization interface [polypeptide binding]; other site 983917003531 substrate binding pocket [chemical binding]; other site 983917003532 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 983917003533 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 983917003534 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 983917003535 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 983917003536 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 983917003537 FMN-binding pocket [chemical binding]; other site 983917003538 flavin binding motif; other site 983917003539 phosphate binding motif [ion binding]; other site 983917003540 beta-alpha-beta structure motif; other site 983917003541 NAD binding pocket [chemical binding]; other site 983917003542 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 983917003543 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 983917003544 catalytic loop [active] 983917003545 iron binding site [ion binding]; other site 983917003546 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 983917003547 active site 983917003548 catalytic triad [active] 983917003549 H-NS histone family; Region: Histone_HNS; pfam00816 983917003550 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 983917003551 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 983917003552 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917003553 catalytic residue [active] 983917003554 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 983917003555 ArsC family; Region: ArsC; pfam03960 983917003556 putative catalytic residues [active] 983917003557 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 983917003558 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 983917003559 Lumazine binding domain; Region: Lum_binding; pfam00677 983917003560 Lumazine binding domain; Region: Lum_binding; pfam00677 983917003561 argininosuccinate synthase; Validated; Region: PRK05370 983917003562 argininosuccinate synthase; Provisional; Region: PRK13820 983917003563 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 983917003564 Cytochrome c553 [Energy production and conversion]; Region: COG2863 983917003565 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 983917003566 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 983917003567 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 983917003568 Walker A motif; other site 983917003569 ATP binding site [chemical binding]; other site 983917003570 Walker B motif; other site 983917003571 arginine finger; other site 983917003572 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917003573 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 983917003574 homodimer interface [polypeptide binding]; other site 983917003575 substrate-cofactor binding pocket; other site 983917003576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003577 catalytic residue [active] 983917003578 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 983917003579 Ligand Binding Site [chemical binding]; other site 983917003580 integron integrase; Region: integrase_gron; TIGR02249 983917003581 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 983917003582 Int/Topo IB signature motif; other site 983917003583 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 983917003584 active site 983917003585 catalytic motif [active] 983917003586 Zn binding site [ion binding]; other site 983917003587 Transposase; Region: DEDD_Tnp_IS110; pfam01548 983917003588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 983917003589 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 983917003590 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 983917003591 active site 983917003592 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917003593 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 983917003594 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 983917003595 putative acyl-acceptor binding pocket; other site 983917003596 Methyltransferase domain; Region: Methyltransf_31; pfam13847 983917003597 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 983917003598 S-adenosylmethionine binding site [chemical binding]; other site 983917003599 MOSC domain; Region: MOSC; pfam03473 983917003600 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 983917003601 MgtC family; Region: MgtC; pfam02308 983917003602 hypothetical protein; Provisional; Region: PHA02764 983917003603 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917003604 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 983917003605 N-terminal plug; other site 983917003606 ligand-binding site [chemical binding]; other site 983917003607 CCC1-related family of proteins; Region: CCC1_like; cl00278 983917003608 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 983917003609 Sensors of blue-light using FAD; Region: BLUF; pfam04940 983917003610 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_8; cd07246 983917003611 putative dimer interface [polypeptide binding]; other site 983917003612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 983917003613 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 983917003614 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983917003615 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 983917003616 active site 983917003617 glutathionine S-transferase; Provisional; Region: PRK10542 983917003618 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 983917003619 C-terminal domain interface [polypeptide binding]; other site 983917003620 GSH binding site (G-site) [chemical binding]; other site 983917003621 dimer interface [polypeptide binding]; other site 983917003622 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 983917003623 dimer interface [polypeptide binding]; other site 983917003624 N-terminal domain interface [polypeptide binding]; other site 983917003625 substrate binding pocket (H-site) [chemical binding]; other site 983917003626 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 983917003627 dimer interface [polypeptide binding]; other site 983917003628 exonuclease I; Provisional; Region: sbcB; PRK11779 983917003629 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 983917003630 active site 983917003631 catalytic site [active] 983917003632 substrate binding site [chemical binding]; other site 983917003633 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 983917003634 Carboxylesterase family; Region: COesterase; pfam00135 983917003635 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 983917003636 substrate binding pocket [chemical binding]; other site 983917003637 catalytic triad [active] 983917003638 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 983917003639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917003640 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 983917003641 dimerization interface [polypeptide binding]; other site 983917003642 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 983917003643 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 983917003644 homodimer interface [polypeptide binding]; other site 983917003645 substrate-cofactor binding pocket; other site 983917003646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003647 catalytic residue [active] 983917003648 conjugal transfer protein TraL; Provisional; Region: PRK13886 983917003649 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 983917003650 Transglycosylase; Region: Transgly; pfam00912 983917003651 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 983917003652 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 983917003653 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 983917003654 substrate binding site [chemical binding]; other site 983917003655 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 983917003656 substrate binding site [chemical binding]; other site 983917003657 ligand binding site [chemical binding]; other site 983917003658 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 983917003659 malate dehydrogenase; Provisional; Region: PRK05442 983917003660 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 983917003661 NAD(P) binding site [chemical binding]; other site 983917003662 dimer interface [polypeptide binding]; other site 983917003663 malate binding site [chemical binding]; other site 983917003664 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 983917003665 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917003666 DNA-binding site [nucleotide binding]; DNA binding site 983917003667 UTRA domain; Region: UTRA; pfam07702 983917003668 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 983917003669 Iron-sulfur protein interface; other site 983917003670 proximal quinone binding site [chemical binding]; other site 983917003671 SdhD (CybS) interface [polypeptide binding]; other site 983917003672 proximal heme binding site [chemical binding]; other site 983917003673 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 983917003674 SdhC subunit interface [polypeptide binding]; other site 983917003675 proximal heme binding site [chemical binding]; other site 983917003676 cardiolipin binding site; other site 983917003677 Iron-sulfur protein interface; other site 983917003678 proximal quinone binding site [chemical binding]; other site 983917003679 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 983917003680 L-aspartate oxidase; Provisional; Region: PRK06175 983917003681 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 983917003682 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 983917003683 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 983917003684 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 983917003685 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 983917003686 dimer interface [polypeptide binding]; other site 983917003687 active site 983917003688 citrylCoA binding site [chemical binding]; other site 983917003689 NADH binding [chemical binding]; other site 983917003690 cationic pore residues; other site 983917003691 oxalacetate/citrate binding site [chemical binding]; other site 983917003692 coenzyme A binding site [chemical binding]; other site 983917003693 catalytic triad [active] 983917003694 HDOD domain; Region: HDOD; pfam08668 983917003695 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 983917003696 CoA binding domain; Region: CoA_binding; smart00881 983917003697 CoA-ligase; Region: Ligase_CoA; pfam00549 983917003698 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 983917003699 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 983917003700 CoA-ligase; Region: Ligase_CoA; pfam00549 983917003701 Transcriptional regulators [Transcription]; Region: GntR; COG1802 983917003702 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917003703 DNA-binding site [nucleotide binding]; DNA binding site 983917003704 FCD domain; Region: FCD; pfam07729 983917003705 CheW-like domain; Region: CheW; pfam01584 983917003706 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 983917003707 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 983917003708 active site 983917003709 substrate binding site [chemical binding]; other site 983917003710 coenzyme B12 binding site [chemical binding]; other site 983917003711 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 983917003712 B12 binding site [chemical binding]; other site 983917003713 cobalt ligand [ion binding]; other site 983917003714 ArgK protein; Region: ArgK; pfam03308 983917003715 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 983917003716 Walker A; other site 983917003717 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 983917003718 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 983917003719 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 983917003720 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 983917003721 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917003722 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 983917003723 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 983917003724 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 983917003725 carboxyltransferase (CT) interaction site; other site 983917003726 biotinylation site [posttranslational modification]; other site 983917003727 biotin synthase; Region: bioB; TIGR00433 983917003728 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 983917003729 FeS/SAM binding site; other site 983917003730 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 983917003731 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 983917003732 dimer interface [polypeptide binding]; other site 983917003733 substrate binding site [chemical binding]; other site 983917003734 metal binding site [ion binding]; metal-binding site 983917003735 Protein of unknown function, DUF481; Region: DUF481; pfam04338 983917003736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917003737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917003738 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 983917003739 dimerization interface [polypeptide binding]; other site 983917003740 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 983917003741 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 983917003742 substrate binding site [chemical binding]; other site 983917003743 ligand binding site [chemical binding]; other site 983917003744 Predicted small secreted protein [Function unknown]; Region: COG5510 983917003745 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 983917003746 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 983917003747 substrate binding site [chemical binding]; other site 983917003748 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 983917003749 tartrate dehydrogenase; Region: TTC; TIGR02089 983917003750 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 983917003751 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 983917003752 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917003753 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 983917003754 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 983917003755 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 983917003756 dimerization interface 3.5A [polypeptide binding]; other site 983917003757 active site 983917003758 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 983917003759 active site 983917003760 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 983917003761 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 983917003762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003763 catalytic residue [active] 983917003764 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 983917003765 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 983917003766 substrate binding site [chemical binding]; other site 983917003767 active site 983917003768 catalytic residues [active] 983917003769 heterodimer interface [polypeptide binding]; other site 983917003770 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 983917003771 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 983917003772 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 983917003773 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 983917003774 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917003775 Sporulation related domain; Region: SPOR; pfam05036 983917003776 Colicin V production protein; Region: Colicin_V; pfam02674 983917003777 amidophosphoribosyltransferase; Provisional; Region: PRK09246 983917003778 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 983917003779 active site 983917003780 tetramer interface [polypeptide binding]; other site 983917003781 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917003782 active site 983917003783 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 983917003784 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 983917003785 homodimer interface [polypeptide binding]; other site 983917003786 substrate-cofactor binding pocket; other site 983917003787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003788 catalytic residue [active] 983917003789 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 983917003790 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 983917003791 active site 983917003792 HIGH motif; other site 983917003793 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 983917003794 active site 983917003795 KMSKS motif; other site 983917003796 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917003797 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917003798 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 983917003799 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 983917003800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917003801 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 983917003802 Walker A/P-loop; other site 983917003803 ATP binding site [chemical binding]; other site 983917003804 Q-loop/lid; other site 983917003805 ABC transporter signature motif; other site 983917003806 Walker B; other site 983917003807 D-loop; other site 983917003808 H-loop/switch region; other site 983917003809 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 983917003810 Protein of unknown function DUF72; Region: DUF72; pfam01904 983917003811 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 983917003812 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917003813 binding surface 983917003814 TPR motif; other site 983917003815 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917003816 Protein of unknown function DUF72; Region: DUF72; pfam01904 983917003817 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 983917003818 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917003819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917003820 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 983917003821 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 983917003822 EthD domain; Region: EthD; pfam07110 983917003823 EthD domain; Region: EthD; cl17553 983917003824 NAD-dependent deacetylase; Provisional; Region: PRK00481 983917003825 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 983917003826 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 983917003827 Protein of unknown function (DUF523); Region: DUF523; cl00733 983917003828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917003829 Coenzyme A binding pocket [chemical binding]; other site 983917003830 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917003831 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917003832 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917003833 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 983917003834 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 983917003835 active site 983917003836 Zn binding site [ion binding]; other site 983917003837 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_19; cd04678 983917003838 nudix motif; other site 983917003839 Methyltransferase domain; Region: Methyltransf_23; pfam13489 983917003840 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 983917003841 S-adenosylmethionine binding site [chemical binding]; other site 983917003842 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 983917003843 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_24; cd04683 983917003844 nudix motif; other site 983917003845 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 983917003846 putative hydrophobic ligand binding site [chemical binding]; other site 983917003847 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 983917003848 active site 983917003849 metal binding site [ion binding]; metal-binding site 983917003850 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917003851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917003852 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917003853 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_6; cd07242 983917003854 putative dimer interface [polypeptide binding]; other site 983917003855 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917003856 ligand binding site [chemical binding]; other site 983917003857 Zn binding site [ion binding]; other site 983917003858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917003859 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917003860 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917003861 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917003862 topology modulation protein; Provisional; Region: PRK07261 983917003863 AAA domain; Region: AAA_17; pfam13207 983917003864 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 983917003865 putative acetyltransferase; Provisional; Region: PRK03624 983917003866 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917003867 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 983917003868 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917003869 Coenzyme A binding pocket [chemical binding]; other site 983917003870 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 983917003871 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 983917003872 C-terminal domain interface [polypeptide binding]; other site 983917003873 GSH binding site (G-site) [chemical binding]; other site 983917003874 dimer interface [polypeptide binding]; other site 983917003875 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 983917003876 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983917003877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917003878 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917003879 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 983917003880 substrate binding pocket [chemical binding]; other site 983917003881 membrane-bound complex binding site; other site 983917003882 hinge residues; other site 983917003883 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 983917003884 dimer interface [polypeptide binding]; other site 983917003885 conserved gate region; other site 983917003886 putative PBP binding loops; other site 983917003887 ABC-ATPase subunit interface; other site 983917003888 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 983917003889 ABC-ATPase subunit interface; other site 983917003890 putative PBP binding loops; other site 983917003891 Bacitracin resistance protein BacA; Region: BacA; pfam02673 983917003892 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 983917003893 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 983917003894 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 983917003895 putative active site [active] 983917003896 putative PHP Thumb interface [polypeptide binding]; other site 983917003897 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 983917003898 generic binding surface II; other site 983917003899 generic binding surface I; other site 983917003900 putative hydrolase; Provisional; Region: PRK11460 983917003901 hypothetical protein; Validated; Region: PRK02101 983917003902 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 983917003903 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 983917003904 Predicted membrane protein [Function unknown]; Region: COG3174 983917003905 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 983917003906 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 983917003907 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917003908 Beta-Casp domain; Region: Beta-Casp; smart01027 983917003909 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 983917003910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917003911 NAD(P) binding site [chemical binding]; other site 983917003912 active site 983917003913 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 983917003914 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 983917003915 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 983917003916 active site 983917003917 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 983917003918 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 983917003919 kynureninase; Region: kynureninase; TIGR01814 983917003920 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917003921 catalytic residue [active] 983917003922 Putative cyclase; Region: Cyclase; cl00814 983917003923 Flagellin N-methylase; Region: FliB; cl00497 983917003924 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 983917003925 Catalytic domain of Protein Kinases; Region: PKc; cd00180 983917003926 active site 983917003927 ATP binding site [chemical binding]; other site 983917003928 substrate binding site [chemical binding]; other site 983917003929 activation loop (A-loop); other site 983917003930 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 983917003931 Ligand Binding Site [chemical binding]; other site 983917003932 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983917003933 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 983917003934 active site 983917003935 metal binding site [ion binding]; metal-binding site 983917003936 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 983917003937 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 983917003938 RibD C-terminal domain; Region: RibD_C; cl17279 983917003939 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 983917003940 classical (c) SDRs; Region: SDR_c; cd05233 983917003941 NAD(P) binding site [chemical binding]; other site 983917003942 active site 983917003943 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]; Region: COG2140 983917003944 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 983917003945 30S subunit binding site; other site 983917003946 ornithine carbamoyltransferase; Provisional; Region: PRK00779 983917003947 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 983917003948 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 983917003949 acetylornithine aminotransferase; Provisional; Region: PRK02627 983917003950 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 983917003951 inhibitor-cofactor binding pocket; inhibition site 983917003952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917003953 catalytic residue [active] 983917003954 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 983917003955 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 983917003956 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 983917003957 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 983917003958 Uncharacterized conserved protein [Function unknown]; Region: COG2912 983917003959 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 983917003960 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 983917003961 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 983917003962 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 983917003963 Walker A motif; other site 983917003964 Walker A motif; other site 983917003965 ATP binding site [chemical binding]; other site 983917003966 ATP binding site [chemical binding]; other site 983917003967 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 983917003968 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 983917003969 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 983917003970 poly(A) polymerase; Region: pcnB; TIGR01942 983917003971 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 983917003972 active site 983917003973 NTP binding site [chemical binding]; other site 983917003974 metal binding triad [ion binding]; metal-binding site 983917003975 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 983917003976 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 983917003977 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 983917003978 catalytic center binding site [active] 983917003979 ATP binding site [chemical binding]; other site 983917003980 Protein of unknown function, DUF486; Region: DUF486; cl01236 983917003981 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 983917003982 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 983917003983 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 983917003984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917003985 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 983917003986 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 983917003987 RimM N-terminal domain; Region: RimM; pfam01782 983917003988 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 983917003989 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 983917003990 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 983917003991 putative active site [active] 983917003992 putative CoA binding site [chemical binding]; other site 983917003993 nudix motif; other site 983917003994 metal binding site [ion binding]; metal-binding site 983917003995 CobD/Cbib protein; Region: CobD_Cbib; cl00561 983917003996 GTPase RsgA; Reviewed; Region: PRK00098 983917003997 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 983917003998 RNA binding site [nucleotide binding]; other site 983917003999 homodimer interface [polypeptide binding]; other site 983917004000 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 983917004001 GTPase/Zn-binding domain interface [polypeptide binding]; other site 983917004002 GTP/Mg2+ binding site [chemical binding]; other site 983917004003 G4 box; other site 983917004004 G5 box; other site 983917004005 G1 box; other site 983917004006 Switch I region; other site 983917004007 G2 box; other site 983917004008 G3 box; other site 983917004009 Switch II region; other site 983917004010 Peptidase family M48; Region: Peptidase_M48; pfam01435 983917004011 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 983917004012 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 983917004013 catalytic site [active] 983917004014 putative active site [active] 983917004015 putative substrate binding site [chemical binding]; other site 983917004016 dimer interface [polypeptide binding]; other site 983917004017 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917004018 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 983917004019 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 983917004020 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 983917004021 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 983917004022 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983917004023 ATP binding site [chemical binding]; other site 983917004024 Mg++ binding site [ion binding]; other site 983917004025 motif III; other site 983917004026 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 983917004027 nucleotide binding region [chemical binding]; other site 983917004028 ATP-binding site [chemical binding]; other site 983917004029 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 983917004030 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 983917004031 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 983917004032 active site 983917004033 HIGH motif; other site 983917004034 nucleotide binding site [chemical binding]; other site 983917004035 KMSKS motif; other site 983917004036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917004037 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 983917004038 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 983917004039 dimerization interface [polypeptide binding]; other site 983917004040 Pirin-related protein [General function prediction only]; Region: COG1741 983917004041 Pirin; Region: Pirin; pfam02678 983917004042 Protein of unknown function, DUF599; Region: DUF599; pfam04654 983917004043 acetylornithine deacetylase; Provisional; Region: PRK07522 983917004044 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 983917004045 metal binding site [ion binding]; metal-binding site 983917004046 putative dimer interface [polypeptide binding]; other site 983917004047 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 983917004048 hypothetical protein; Provisional; Region: PRK06815 983917004049 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917004050 catalytic residue [active] 983917004051 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917004052 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 983917004053 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 983917004054 putative active site [active] 983917004055 putative PHP Thumb interface [polypeptide binding]; other site 983917004056 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 983917004057 generic binding surface I; other site 983917004058 generic binding surface II; other site 983917004059 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 983917004060 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 983917004061 dimer interface [polypeptide binding]; other site 983917004062 active site 983917004063 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 983917004064 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 983917004065 putative ribose interaction site [chemical binding]; other site 983917004066 putative ADP binding site [chemical binding]; other site 983917004067 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 983917004068 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 983917004069 active site 983917004070 nucleotide binding site [chemical binding]; other site 983917004071 HIGH motif; other site 983917004072 KMSKS motif; other site 983917004073 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 983917004074 active site 983917004075 motif I; other site 983917004076 motif II; other site 983917004077 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 983917004078 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 983917004079 putative active site [active] 983917004080 LicD family; Region: LicD; pfam04991 983917004081 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 983917004082 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 983917004083 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 983917004084 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 983917004085 putative active site [active] 983917004086 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 983917004087 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 983917004088 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 983917004089 Walker A/P-loop; other site 983917004090 ATP binding site [chemical binding]; other site 983917004091 Q-loop/lid; other site 983917004092 ABC transporter signature motif; other site 983917004093 Walker B; other site 983917004094 D-loop; other site 983917004095 H-loop/switch region; other site 983917004096 tetratricopeptide repeat protein; Provisional; Region: PRK11788 983917004097 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917004098 binding surface 983917004099 TPR motif; other site 983917004100 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 983917004101 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 983917004102 IHF dimer interface [polypeptide binding]; other site 983917004103 IHF - DNA interface [nucleotide binding]; other site 983917004104 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 983917004105 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 983917004106 RNA binding site [nucleotide binding]; other site 983917004107 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 983917004108 RNA binding site [nucleotide binding]; other site 983917004109 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 983917004110 RNA binding site [nucleotide binding]; other site 983917004111 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 983917004112 RNA binding site [nucleotide binding]; other site 983917004113 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 983917004114 RNA binding site [nucleotide binding]; other site 983917004115 S1_RPS1_repeat_ec6: 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_ec6; cd05691 983917004116 RNA binding site [nucleotide binding]; other site 983917004117 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 983917004118 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 983917004119 hinge; other site 983917004120 active site 983917004121 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 983917004122 CMP-binding site; other site 983917004123 The sites determining sugar specificity; other site 983917004124 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 983917004125 prephenate dehydrogenase; Validated; Region: PRK08507 983917004126 Chorismate mutase type II; Region: CM_2; pfam01817 983917004127 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 983917004128 Prephenate dehydratase; Region: PDT; pfam00800 983917004129 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 983917004130 putative L-Phe binding site [chemical binding]; other site 983917004131 DNA gyrase subunit A; Validated; Region: PRK05560 983917004132 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 983917004133 CAP-like domain; other site 983917004134 active site 983917004135 primary dimer interface [polypeptide binding]; other site 983917004136 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983917004137 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983917004138 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983917004139 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983917004140 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983917004141 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983917004142 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917004143 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917004144 ligand binding site [chemical binding]; other site 983917004145 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 983917004146 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 983917004147 S-adenosylmethionine binding site [chemical binding]; other site 983917004148 phosphoglycolate phosphatase; Provisional; Region: PRK13222 983917004149 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 983917004150 motif II; other site 983917004151 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 983917004152 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 983917004153 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 983917004154 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 983917004155 NADP binding site [chemical binding]; other site 983917004156 dimer interface [polypeptide binding]; other site 983917004157 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 983917004158 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 983917004159 lipoprotein signal peptidase; Provisional; Region: PRK14787 983917004160 PAS fold; Region: PAS_4; pfam08448 983917004161 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917004162 putative active site [active] 983917004163 heme pocket [chemical binding]; other site 983917004164 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917004165 PAS domain; Region: PAS_9; pfam13426 983917004166 putative active site [active] 983917004167 heme pocket [chemical binding]; other site 983917004168 PAS fold; Region: PAS_4; pfam08448 983917004169 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917004170 putative active site [active] 983917004171 heme pocket [chemical binding]; other site 983917004172 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917004173 dimer interface [polypeptide binding]; other site 983917004174 phosphorylation site [posttranslational modification] 983917004175 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917004176 ATP binding site [chemical binding]; other site 983917004177 G-X-G motif; other site 983917004178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004179 Response regulator receiver domain; Region: Response_reg; pfam00072 983917004180 active site 983917004181 phosphorylation site [posttranslational modification] 983917004182 intermolecular recognition site; other site 983917004183 dimerization interface [polypeptide binding]; other site 983917004184 Response regulator receiver domain; Region: Response_reg; pfam00072 983917004185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004186 active site 983917004187 phosphorylation site [posttranslational modification] 983917004188 intermolecular recognition site; other site 983917004189 dimerization interface [polypeptide binding]; other site 983917004190 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 983917004191 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917004192 active site 983917004193 HIGH motif; other site 983917004194 nucleotide binding site [chemical binding]; other site 983917004195 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 983917004196 active site 983917004197 KMSKS motif; other site 983917004198 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 983917004199 tRNA binding surface [nucleotide binding]; other site 983917004200 anticodon binding site; other site 983917004201 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 983917004202 MltA-interacting protein MipA; Region: MipA; cl01504 983917004203 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 983917004204 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 983917004205 active site 983917004206 Riboflavin kinase; Region: Flavokinase; smart00904 983917004207 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 983917004208 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 983917004209 RNA binding surface [nucleotide binding]; other site 983917004210 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 983917004211 active site 983917004212 uracil binding [chemical binding]; other site 983917004213 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 983917004214 putative active site pocket [active] 983917004215 cleavage site 983917004216 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 983917004217 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 983917004218 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 983917004219 active site 983917004220 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 983917004221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917004222 active site 983917004223 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 983917004224 catalytic motif [active] 983917004225 Catalytic residue [active] 983917004226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 983917004227 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 983917004228 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 983917004229 FAD binding domain; Region: FAD_binding_4; pfam01565 983917004230 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 983917004231 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 983917004232 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917004233 dimer interface [polypeptide binding]; other site 983917004234 phosphorylation site [posttranslational modification] 983917004235 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917004236 ATP binding site [chemical binding]; other site 983917004237 Mg2+ binding site [ion binding]; other site 983917004238 G-X-G motif; other site 983917004239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004240 Response regulator receiver domain; Region: Response_reg; pfam00072 983917004241 active site 983917004242 phosphorylation site [posttranslational modification] 983917004243 intermolecular recognition site; other site 983917004244 dimerization interface [polypeptide binding]; other site 983917004245 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 983917004246 Moco binding site; other site 983917004247 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 983917004248 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 983917004249 TPR repeat; Region: TPR_11; pfam13414 983917004250 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917004251 binding surface 983917004252 TPR motif; other site 983917004253 Biofilm formation and stress response factor; Region: BsmA; pfam10014 983917004254 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 983917004255 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 983917004256 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 983917004257 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 983917004258 active site 983917004259 ADP/pyrophosphate binding site [chemical binding]; other site 983917004260 dimerization interface [polypeptide binding]; other site 983917004261 allosteric effector site; other site 983917004262 fructose-1,6-bisphosphate binding site; other site 983917004263 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 983917004264 short chain dehydrogenase; Provisional; Region: PRK07023 983917004265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917004266 NAD(P) binding site [chemical binding]; other site 983917004267 active site 983917004268 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 983917004269 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 983917004270 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 983917004271 active site 983917004272 GTPase RsgA; Reviewed; Region: PRK01889 983917004273 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 983917004274 GTPase/Zn-binding domain interface [polypeptide binding]; other site 983917004275 GTP/Mg2+ binding site [chemical binding]; other site 983917004276 G4 box; other site 983917004277 G5 box; other site 983917004278 G1 box; other site 983917004279 Switch I region; other site 983917004280 G2 box; other site 983917004281 G3 box; other site 983917004282 Switch II region; other site 983917004283 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917004284 PGAP1-like protein; Region: PGAP1; pfam07819 983917004285 enterobactin exporter EntS; Provisional; Region: PRK10489 983917004286 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 983917004287 active site 983917004288 catalytic site [active] 983917004289 substrate binding site [chemical binding]; other site 983917004290 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 983917004291 Dehydroquinase class II; Region: DHquinase_II; pfam01220 983917004292 active site 983917004293 trimer interface [polypeptide binding]; other site 983917004294 dimer interface [polypeptide binding]; other site 983917004295 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 983917004296 chromosome condensation membrane protein; Provisional; Region: PRK14196 983917004297 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 983917004298 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 983917004299 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 983917004300 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 983917004301 putative MPT binding site; other site 983917004302 glutamine synthetase; Provisional; Region: glnA; PRK09469 983917004303 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 983917004304 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 983917004305 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 983917004306 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917004307 dimer interface [polypeptide binding]; other site 983917004308 phosphorylation site [posttranslational modification] 983917004309 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917004310 ATP binding site [chemical binding]; other site 983917004311 Mg2+ binding site [ion binding]; other site 983917004312 G-X-G motif; other site 983917004313 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 983917004314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004315 active site 983917004316 phosphorylation site [posttranslational modification] 983917004317 intermolecular recognition site; other site 983917004318 dimerization interface [polypeptide binding]; other site 983917004319 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 983917004320 Walker A motif; other site 983917004321 ATP binding site [chemical binding]; other site 983917004322 Walker B motif; other site 983917004323 arginine finger; other site 983917004324 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917004325 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 983917004326 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 983917004327 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917004328 catalytic residue [active] 983917004329 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 983917004330 putative catalytic site [active] 983917004331 putative phosphate binding site [ion binding]; other site 983917004332 active site 983917004333 metal binding site A [ion binding]; metal-binding site 983917004334 DNA binding site [nucleotide binding] 983917004335 putative AP binding site [nucleotide binding]; other site 983917004336 putative metal binding site B [ion binding]; other site 983917004337 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 983917004338 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 983917004339 folate binding site [chemical binding]; other site 983917004340 NADP+ binding site [chemical binding]; other site 983917004341 thymidylate synthase; Reviewed; Region: thyA; PRK01827 983917004342 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 983917004343 dimerization interface [polypeptide binding]; other site 983917004344 active site 983917004345 PAS fold; Region: PAS_4; pfam08448 983917004346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917004347 putative active site [active] 983917004348 heme pocket [chemical binding]; other site 983917004349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917004350 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917004351 dimer interface [polypeptide binding]; other site 983917004352 phosphorylation site [posttranslational modification] 983917004353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917004354 ATP binding site [chemical binding]; other site 983917004355 Mg2+ binding site [ion binding]; other site 983917004356 G-X-G motif; other site 983917004357 Response regulator receiver domain; Region: Response_reg; pfam00072 983917004358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004359 active site 983917004360 phosphorylation site [posttranslational modification] 983917004361 intermolecular recognition site; other site 983917004362 dimerization interface [polypeptide binding]; other site 983917004363 Hpt domain; Region: Hpt; pfam01627 983917004364 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 983917004365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004366 active site 983917004367 phosphorylation site [posttranslational modification] 983917004368 intermolecular recognition site; other site 983917004369 dimerization interface [polypeptide binding]; other site 983917004370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917004371 Zn2+ binding site [ion binding]; other site 983917004372 Mg2+ binding site [ion binding]; other site 983917004373 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 983917004374 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 983917004375 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 983917004376 Walker A/P-loop; other site 983917004377 ATP binding site [chemical binding]; other site 983917004378 Q-loop/lid; other site 983917004379 ABC transporter signature motif; other site 983917004380 Walker B; other site 983917004381 D-loop; other site 983917004382 H-loop/switch region; other site 983917004383 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 983917004384 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 983917004385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917004386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917004387 metal binding site [ion binding]; metal-binding site 983917004388 active site 983917004389 I-site; other site 983917004390 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 983917004391 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917004392 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 983917004393 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917004394 Walker A/P-loop; other site 983917004395 ATP binding site [chemical binding]; other site 983917004396 Q-loop/lid; other site 983917004397 ABC transporter signature motif; other site 983917004398 Walker B; other site 983917004399 D-loop; other site 983917004400 H-loop/switch region; other site 983917004401 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 983917004402 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 983917004403 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 983917004404 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 983917004405 putative substrate translocation pore; other site 983917004406 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 983917004407 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 983917004408 RNA binding surface [nucleotide binding]; other site 983917004409 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 983917004410 active site 983917004411 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 983917004412 FOG: CBS domain [General function prediction only]; Region: COG0517 983917004413 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 983917004414 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917004415 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983917004416 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 983917004417 dimerization interface [polypeptide binding]; other site 983917004418 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 983917004419 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 983917004420 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 983917004421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917004422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917004423 metal binding site [ion binding]; metal-binding site 983917004424 active site 983917004425 I-site; other site 983917004426 Transcriptional regulators [Transcription]; Region: FadR; COG2186 983917004427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917004428 DNA-binding site [nucleotide binding]; DNA binding site 983917004429 FCD domain; Region: FCD; pfam07729 983917004430 putative transporter; Provisional; Region: PRK09821 983917004431 GntP family permease; Region: GntP_permease; pfam02447 983917004432 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 983917004433 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 983917004434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 983917004435 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 983917004436 intersubunit interface [polypeptide binding]; other site 983917004437 active site 983917004438 Zn2+ binding site [ion binding]; other site 983917004439 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 983917004440 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 983917004441 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 983917004442 putative active site [active] 983917004443 catalytic site [active] 983917004444 putative metal binding site [ion binding]; other site 983917004445 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 983917004446 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917004447 ATP binding site [chemical binding]; other site 983917004448 Mg2+ binding site [ion binding]; other site 983917004449 G-X-G motif; other site 983917004450 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 983917004451 ATP binding site [chemical binding]; other site 983917004452 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 983917004453 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917004454 dimer interface [polypeptide binding]; other site 983917004455 phosphorylation site [posttranslational modification] 983917004456 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917004457 ATP binding site [chemical binding]; other site 983917004458 Mg2+ binding site [ion binding]; other site 983917004459 G-X-G motif; other site 983917004460 Response regulator receiver domain; Region: Response_reg; pfam00072 983917004461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917004462 active site 983917004463 phosphorylation site [posttranslational modification] 983917004464 intermolecular recognition site; other site 983917004465 dimerization interface [polypeptide binding]; other site 983917004466 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 983917004467 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 983917004468 AMIN domain; Region: AMIN; pfam11741 983917004469 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 983917004470 active site 983917004471 metal binding site [ion binding]; metal-binding site 983917004472 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 983917004473 epoxyqueuosine reductase; Region: TIGR00276 983917004474 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 983917004475 Predicted permeases [General function prediction only]; Region: COG0679 983917004476 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917004477 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 983917004478 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 983917004479 active site 983917004480 DNA binding site [nucleotide binding] 983917004481 Int/Topo IB signature motif; other site 983917004482 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917004483 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 983917004484 AsnC family; Region: AsnC_trans_reg; pfam01037 983917004485 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 983917004486 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 983917004487 inhibitor-cofactor binding pocket; inhibition site 983917004488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917004489 catalytic residue [active] 983917004490 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 983917004491 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 983917004492 trimer interface [polypeptide binding]; other site 983917004493 eyelet of channel; other site 983917004494 MarC family integral membrane protein; Region: MarC; cl00919 983917004495 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 983917004496 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 983917004497 dimer interface [polypeptide binding]; other site 983917004498 conserved gate region; other site 983917004499 putative PBP binding loops; other site 983917004500 ABC-ATPase subunit interface; other site 983917004501 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 983917004502 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917004503 substrate binding pocket [chemical binding]; other site 983917004504 membrane-bound complex binding site; other site 983917004505 hinge residues; other site 983917004506 Uncharacterized conserved protein [Function unknown]; Region: COG5476 983917004507 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 983917004508 MlrC C-terminus; Region: MlrC_C; pfam07171 983917004509 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 983917004510 dinuclear metal binding motif [ion binding]; other site 983917004511 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 983917004512 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 983917004513 trimer interface [polypeptide binding]; other site 983917004514 putative metal binding site [ion binding]; other site 983917004515 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 983917004516 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 983917004517 dimerization interface [polypeptide binding]; other site 983917004518 domain crossover interface; other site 983917004519 redox-dependent activation switch; other site 983917004520 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 983917004521 AAA domain; Region: AAA_28; pfam13521 983917004522 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 983917004523 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 983917004524 Septum formation initiator; Region: DivIC; cl17659 983917004525 enolase; Provisional; Region: eno; PRK00077 983917004526 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 983917004527 dimer interface [polypeptide binding]; other site 983917004528 metal binding site [ion binding]; metal-binding site 983917004529 substrate binding pocket [chemical binding]; other site 983917004530 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 983917004531 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 983917004532 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 983917004533 CTP synthetase; Validated; Region: pyrG; PRK05380 983917004534 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 983917004535 Catalytic site [active] 983917004536 active site 983917004537 UTP binding site [chemical binding]; other site 983917004538 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 983917004539 active site 983917004540 putative oxyanion hole; other site 983917004541 catalytic triad [active] 983917004542 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 983917004543 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 983917004544 N-terminal plug; other site 983917004545 ligand-binding site [chemical binding]; other site 983917004546 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 983917004547 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 983917004548 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 983917004549 intersubunit interface [polypeptide binding]; other site 983917004550 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 983917004551 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 983917004552 putative PBP binding regions; other site 983917004553 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 983917004554 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 983917004555 Walker A/P-loop; other site 983917004556 ATP binding site [chemical binding]; other site 983917004557 Q-loop/lid; other site 983917004558 ABC transporter signature motif; other site 983917004559 Walker B; other site 983917004560 D-loop; other site 983917004561 H-loop/switch region; other site 983917004562 cobyric acid synthase; Provisional; Region: PRK00784 983917004563 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 983917004564 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 983917004565 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 983917004566 catalytic triad [active] 983917004567 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 983917004568 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 983917004569 putative dimer interface [polypeptide binding]; other site 983917004570 active site pocket [active] 983917004571 putative cataytic base [active] 983917004572 cobalamin synthase; Reviewed; Region: cobS; PRK00235 983917004573 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 983917004574 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 983917004575 trimer interface [polypeptide binding]; other site 983917004576 putative Zn binding site [ion binding]; other site 983917004577 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917004578 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 983917004579 nucleophilic elbow; other site 983917004580 catalytic triad; other site 983917004581 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 983917004582 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 983917004583 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 983917004584 MutS domain I; Region: MutS_I; pfam01624 983917004585 MutS domain II; Region: MutS_II; pfam05188 983917004586 MutS domain III; Region: MutS_III; pfam05192 983917004587 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 983917004588 Walker A/P-loop; other site 983917004589 ATP binding site [chemical binding]; other site 983917004590 Q-loop/lid; other site 983917004591 ABC transporter signature motif; other site 983917004592 Walker B; other site 983917004593 D-loop; other site 983917004594 H-loop/switch region; other site 983917004595 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 983917004596 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 983917004597 active site 983917004598 dimerization interface [polypeptide binding]; other site 983917004599 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 983917004600 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 983917004601 serine O-acetyltransferase; Region: cysE; TIGR01172 983917004602 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 983917004603 trimer interface [polypeptide binding]; other site 983917004604 active site 983917004605 substrate binding site [chemical binding]; other site 983917004606 CoA binding site [chemical binding]; other site 983917004607 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 983917004608 MPT binding site; other site 983917004609 trimer interface [polypeptide binding]; other site 983917004610 hypothetical protein; Provisional; Region: PRK05255 983917004611 peptidase PmbA; Provisional; Region: PRK11040 983917004612 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 983917004613 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 983917004614 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 983917004615 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 983917004616 Putative phosphatase (DUF442); Region: DUF442; cl17385 983917004617 Yqey-like protein; Region: YqeY; pfam09424 983917004618 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 983917004619 glycosyl transferase family protein; Provisional; Region: PRK08136 983917004620 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 983917004621 PAS domain; Region: PAS_9; pfam13426 983917004622 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917004623 putative active site [active] 983917004624 heme pocket [chemical binding]; other site 983917004625 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917004626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917004627 metal binding site [ion binding]; metal-binding site 983917004628 active site 983917004629 I-site; other site 983917004630 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983917004631 EVE domain; Region: EVE; cl00728 983917004632 Cell division protein ZapA; Region: ZapA; pfam05164 983917004633 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 983917004634 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 983917004635 minor groove reading motif; other site 983917004636 helix-hairpin-helix signature motif; other site 983917004637 substrate binding pocket [chemical binding]; other site 983917004638 active site 983917004639 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 983917004640 4Fe-4S binding domain; Region: Fer4; pfam00037 983917004641 Ferredoxin [Energy production and conversion]; Region: COG1146 983917004642 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 983917004643 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 983917004644 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 983917004645 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 983917004646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917004647 homodimer interface [polypeptide binding]; other site 983917004648 catalytic residue [active] 983917004649 excinuclease ABC subunit B; Provisional; Region: PRK05298 983917004650 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 983917004651 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 983917004652 ATP-binding site [chemical binding]; other site 983917004653 ATP binding site [chemical binding]; other site 983917004654 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 983917004655 nucleotide binding region [chemical binding]; other site 983917004656 ATP-binding site [chemical binding]; other site 983917004657 Ultra-violet resistance protein B; Region: UvrB; pfam12344 983917004658 UvrB/uvrC motif; Region: UVR; pfam02151 983917004659 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 983917004660 Low molecular weight phosphatase family; Region: LMWPc; cd00115 983917004661 active site 983917004662 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 983917004663 Rrf2 family protein; Region: rrf2_super; TIGR00738 983917004664 cysteine desulfurase; Provisional; Region: PRK14012 983917004665 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 983917004666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917004667 catalytic residue [active] 983917004668 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 983917004669 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 983917004670 trimerization site [polypeptide binding]; other site 983917004671 active site 983917004672 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 983917004673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917004674 Coenzyme A binding pocket [chemical binding]; other site 983917004675 co-chaperone HscB; Provisional; Region: hscB; PRK03578 983917004676 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 983917004677 chaperone protein HscA; Provisional; Region: hscA; PRK05183 983917004678 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 983917004679 nucleotide binding site [chemical binding]; other site 983917004680 putative NEF/HSP70 interaction site [polypeptide binding]; other site 983917004681 SBD interface [polypeptide binding]; other site 983917004682 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 983917004683 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 983917004684 catalytic loop [active] 983917004685 iron binding site [ion binding]; other site 983917004686 UGMP family protein; Validated; Region: PRK09604 983917004687 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 983917004688 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 983917004689 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 983917004690 putative ligand binding site [chemical binding]; other site 983917004691 aspartate aminotransferase; Provisional; Region: PRK06108 983917004692 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 983917004693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917004694 homodimer interface [polypeptide binding]; other site 983917004695 catalytic residue [active] 983917004696 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 983917004697 16S/18S rRNA binding site [nucleotide binding]; other site 983917004698 S13e-L30e interaction site [polypeptide binding]; other site 983917004699 25S rRNA binding site [nucleotide binding]; other site 983917004700 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 983917004701 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 983917004702 RNase E interface [polypeptide binding]; other site 983917004703 trimer interface [polypeptide binding]; other site 983917004704 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 983917004705 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 983917004706 RNase E interface [polypeptide binding]; other site 983917004707 trimer interface [polypeptide binding]; other site 983917004708 active site 983917004709 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 983917004710 putative nucleic acid binding region [nucleotide binding]; other site 983917004711 G-X-X-G motif; other site 983917004712 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 983917004713 RNA binding site [nucleotide binding]; other site 983917004714 domain interface; other site 983917004715 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 983917004716 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 983917004717 NAD(P) binding site [chemical binding]; other site 983917004718 triosephosphate isomerase; Provisional; Region: PRK14567 983917004719 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 983917004720 substrate binding site [chemical binding]; other site 983917004721 dimer interface [polypeptide binding]; other site 983917004722 catalytic triad [active] 983917004723 Preprotein translocase SecG subunit; Region: SecG; pfam03840 983917004724 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 983917004725 NADH dehydrogenase subunit B; Validated; Region: PRK06411 983917004726 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 983917004727 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 983917004728 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 983917004729 NADH dehydrogenase subunit D; Validated; Region: PRK06075 983917004730 NADH dehydrogenase subunit E; Validated; Region: PRK07539 983917004731 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 983917004732 putative dimer interface [polypeptide binding]; other site 983917004733 [2Fe-2S] cluster binding site [ion binding]; other site 983917004734 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 983917004735 SLBB domain; Region: SLBB; pfam10531 983917004736 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 983917004737 NADH dehydrogenase subunit G; Validated; Region: PRK09129 983917004738 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 983917004739 catalytic loop [active] 983917004740 iron binding site [ion binding]; other site 983917004741 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 983917004742 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 983917004743 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 983917004744 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 983917004745 4Fe-4S binding domain; Region: Fer4; pfam00037 983917004746 4Fe-4S binding domain; Region: Fer4; pfam00037 983917004747 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 983917004748 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 983917004749 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 983917004750 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 983917004751 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 983917004752 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 983917004753 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 983917004754 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 983917004755 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 983917004756 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 983917004757 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 983917004758 dimer interface [polypeptide binding]; other site 983917004759 ADP-ribose binding site [chemical binding]; other site 983917004760 active site 983917004761 nudix motif; other site 983917004762 metal binding site [ion binding]; metal-binding site 983917004763 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 983917004764 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 983917004765 FAD binding domain; Region: FAD_binding_4; pfam01565 983917004766 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 983917004767 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 983917004768 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 983917004769 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 983917004770 generic binding surface I; other site 983917004771 generic binding surface II; other site 983917004772 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 983917004773 putative active site [active] 983917004774 putative catalytic site [active] 983917004775 putative Mg binding site IVb [ion binding]; other site 983917004776 putative phosphate binding site [ion binding]; other site 983917004777 putative DNA binding site [nucleotide binding]; other site 983917004778 putative Mg binding site IVa [ion binding]; other site 983917004779 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 983917004780 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 983917004781 DctM-like transporters; Region: DctM; pfam06808 983917004782 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 983917004783 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 983917004784 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917004785 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 983917004786 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 983917004787 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 983917004788 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 983917004789 homodimer interface [polypeptide binding]; other site 983917004790 substrate-cofactor binding pocket; other site 983917004791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917004792 catalytic residue [active] 983917004793 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 983917004794 FOG: CBS domain [General function prediction only]; Region: COG0517 983917004795 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 983917004796 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 983917004797 Tetramer interface [polypeptide binding]; other site 983917004798 active site 983917004799 FMN-binding site [chemical binding]; other site 983917004800 MFS_1 like family; Region: MFS_1_like; pfam12832 983917004801 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 983917004802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917004803 PAS domain; Region: PAS_9; pfam13426 983917004804 putative active site [active] 983917004805 heme pocket [chemical binding]; other site 983917004806 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917004807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917004808 metal binding site [ion binding]; metal-binding site 983917004809 active site 983917004810 I-site; other site 983917004811 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 983917004812 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917004813 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917004814 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917004815 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983917004816 Protein export membrane protein; Region: SecD_SecF; cl14618 983917004817 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 983917004818 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 983917004819 Walker A/P-loop; other site 983917004820 ATP binding site [chemical binding]; other site 983917004821 Q-loop/lid; other site 983917004822 ABC transporter signature motif; other site 983917004823 Walker B; other site 983917004824 D-loop; other site 983917004825 H-loop/switch region; other site 983917004826 TOBE domain; Region: TOBE_2; pfam08402 983917004827 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 983917004828 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 983917004829 dimer interface [polypeptide binding]; other site 983917004830 conserved gate region; other site 983917004831 putative PBP binding loops; other site 983917004832 ABC-ATPase subunit interface; other site 983917004833 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 983917004834 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 983917004835 putative PBP binding loops; other site 983917004836 dimer interface [polypeptide binding]; other site 983917004837 ABC-ATPase subunit interface; other site 983917004838 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 983917004839 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 983917004840 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 983917004841 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 983917004842 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 983917004843 glycine dehydrogenase; Provisional; Region: PRK05367 983917004844 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 983917004845 tetramer interface [polypeptide binding]; other site 983917004846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917004847 catalytic residue [active] 983917004848 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 983917004849 tetramer interface [polypeptide binding]; other site 983917004850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917004851 catalytic residue [active] 983917004852 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 983917004853 lipoyl attachment site [posttranslational modification]; other site 983917004854 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 983917004855 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 983917004856 acyl-CoA synthetase; Validated; Region: PRK08162 983917004857 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 983917004858 acyl-activating enzyme (AAE) consensus motif; other site 983917004859 putative active site [active] 983917004860 AMP binding site [chemical binding]; other site 983917004861 putative CoA binding site [chemical binding]; other site 983917004862 enoyl-CoA hydratase; Validated; Region: PRK08139 983917004863 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 983917004864 substrate binding site [chemical binding]; other site 983917004865 oxyanion hole (OAH) forming residues; other site 983917004866 trimer interface [polypeptide binding]; other site 983917004867 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 983917004868 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917004869 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 983917004870 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 983917004871 hydroxyglutarate oxidase; Provisional; Region: PRK11728 983917004872 Predicted dehydrogenase [General function prediction only]; Region: COG0579 983917004873 short chain dehydrogenase; Provisional; Region: PRK06949 983917004874 classical (c) SDRs; Region: SDR_c; cd05233 983917004875 NAD(P) binding site [chemical binding]; other site 983917004876 active site 983917004877 Protein of unknown function, DUF480; Region: DUF480; cl01209 983917004878 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 983917004879 active site 983917004880 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 983917004881 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 983917004882 putative C-terminal domain interface [polypeptide binding]; other site 983917004883 putative GSH binding site (G-site) [chemical binding]; other site 983917004884 putative dimer interface [polypeptide binding]; other site 983917004885 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 983917004886 putative N-terminal domain interface [polypeptide binding]; other site 983917004887 putative dimer interface [polypeptide binding]; other site 983917004888 putative substrate binding pocket (H-site) [chemical binding]; other site 983917004889 PAS domain; Region: PAS_9; pfam13426 983917004890 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 983917004891 putative active site [active] 983917004892 heme pocket [chemical binding]; other site 983917004893 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 983917004894 DNA binding residues [nucleotide binding] 983917004895 dimerization interface [polypeptide binding]; other site 983917004896 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 983917004897 potential frameshift: common BLAST hit: gi|89901410|ref|YP_523881.1| 3-oxoacid CoA-transferase subunit B 983917004898 Coenzyme A transferase; Region: CoA_trans; cl17247 983917004899 Coenzyme A transferase; Region: CoA_trans; cl17247 983917004900 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 983917004901 active site 983917004902 phosphorylation site [posttranslational modification] 983917004903 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 983917004904 dimerization domain swap beta strand [polypeptide binding]; other site 983917004905 regulatory protein interface [polypeptide binding]; other site 983917004906 active site 983917004907 regulatory phosphorylation site [posttranslational modification]; other site 983917004908 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 983917004909 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 983917004910 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 983917004911 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 983917004912 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 983917004913 putative substrate binding site [chemical binding]; other site 983917004914 putative ATP binding site [chemical binding]; other site 983917004915 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 983917004916 active site 983917004917 P-loop; other site 983917004918 phosphorylation site [posttranslational modification] 983917004919 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 983917004920 active site 983917004921 P-loop; other site 983917004922 phosphorylation site [posttranslational modification] 983917004923 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 983917004924 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 983917004925 active site 983917004926 zinc binding site [ion binding]; other site 983917004927 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 983917004928 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 983917004929 quinone interaction residues [chemical binding]; other site 983917004930 active site 983917004931 catalytic residues [active] 983917004932 FMN binding site [chemical binding]; other site 983917004933 substrate binding site [chemical binding]; other site 983917004934 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 983917004935 tetramer (dimer of dimers) interface [polypeptide binding]; other site 983917004936 active site 983917004937 dimer interface [polypeptide binding]; other site 983917004938 Uncharacterized conserved protein [Function unknown]; Region: COG4121 983917004939 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 983917004940 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 983917004941 elongation factor P; Validated; Region: PRK00529 983917004942 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 983917004943 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 983917004944 RNA binding site [nucleotide binding]; other site 983917004945 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 983917004946 RNA binding site [nucleotide binding]; other site 983917004947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 983917004948 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 983917004949 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 983917004950 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 983917004951 GIY-YIG motif/motif A; other site 983917004952 active site 983917004953 catalytic site [active] 983917004954 putative DNA binding site [nucleotide binding]; other site 983917004955 metal binding site [ion binding]; metal-binding site 983917004956 UvrB/uvrC motif; Region: UVR; pfam02151 983917004957 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 983917004958 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 983917004959 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 983917004960 IHF dimer interface [polypeptide binding]; other site 983917004961 IHF - DNA interface [nucleotide binding]; other site 983917004962 SurA N-terminal domain; Region: SurA_N_3; cl07813 983917004963 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 983917004964 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 983917004965 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 983917004966 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 983917004967 active site 983917004968 Int/Topo IB signature motif; other site 983917004969 DNA binding site [nucleotide binding] 983917004970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 983917004971 Integrase core domain; Region: rve; pfam00665 983917004972 Integrase core domain; Region: rve_3; cl15866 983917004973 transposase/IS protein; Provisional; Region: PRK09183 983917004974 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 983917004975 Walker A motif; other site 983917004976 ATP binding site [chemical binding]; other site 983917004977 Walker B motif; other site 983917004978 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 983917004979 DNA methylase; Region: N6_N4_Mtase; cl17433 983917004980 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 983917004981 DNA methylase; Region: N6_N4_Mtase; pfam01555 983917004982 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 983917004983 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 983917004984 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983917004985 head completion protein; Provisional; Region: 4; PHA02552 983917004986 Helix-turn-helix domain; Region: HTH_36; pfam13730 983917004987 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 983917004988 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 983917004989 putative active site [active] 983917004990 putative NTP binding site [chemical binding]; other site 983917004991 putative nucleic acid binding site [nucleotide binding]; other site 983917004992 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 983917004993 non-specific DNA binding site [nucleotide binding]; other site 983917004994 salt bridge; other site 983917004995 sequence-specific DNA binding site [nucleotide binding]; other site 983917004996 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 983917004997 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 983917004998 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 983917004999 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 983917005000 active site 983917005001 NTP binding site [chemical binding]; other site 983917005002 nucleic acid binding site [nucleotide binding]; other site 983917005003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917005004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917005005 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917005006 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917005007 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917005008 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 983917005009 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 983917005010 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917005011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917005012 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 983917005013 PAS fold; Region: PAS; pfam00989 983917005014 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005015 putative active site [active] 983917005016 heme pocket [chemical binding]; other site 983917005017 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917005018 dimer interface [polypeptide binding]; other site 983917005019 phosphorylation site [posttranslational modification] 983917005020 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005021 ATP binding site [chemical binding]; other site 983917005022 Mg2+ binding site [ion binding]; other site 983917005023 G-X-G motif; other site 983917005024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005025 active site 983917005026 phosphorylation site [posttranslational modification] 983917005027 intermolecular recognition site; other site 983917005028 dimerization interface [polypeptide binding]; other site 983917005029 two-component response regulator VirG; Provisional; Region: PRK13856 983917005030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005031 active site 983917005032 phosphorylation site [posttranslational modification] 983917005033 intermolecular recognition site; other site 983917005034 dimerization interface [polypeptide binding]; other site 983917005035 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 983917005036 DNA binding site [nucleotide binding] 983917005037 Tetratricopeptide repeat; Region: TPR_16; pfam13432 983917005038 translation initiation factor Sui1; Validated; Region: PRK06824 983917005039 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 983917005040 putative rRNA binding site [nucleotide binding]; other site 983917005041 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 983917005042 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 983917005043 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 983917005044 Walker A motif; other site 983917005045 ATP binding site [chemical binding]; other site 983917005046 Walker B motif; other site 983917005047 arginine finger; other site 983917005048 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 983917005049 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 983917005050 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 983917005051 metal ion-dependent adhesion site (MIDAS); other site 983917005052 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 983917005053 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 983917005054 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917005055 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 983917005056 acyl-activating enzyme (AAE) consensus motif; other site 983917005057 acyl-activating enzyme (AAE) consensus motif; other site 983917005058 putative AMP binding site [chemical binding]; other site 983917005059 putative active site [active] 983917005060 putative CoA binding site [chemical binding]; other site 983917005061 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 983917005062 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 983917005063 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 983917005064 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 983917005065 Ligand Binding Site [chemical binding]; other site 983917005066 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 983917005067 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 983917005068 active site residue [active] 983917005069 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 983917005070 active site residue [active] 983917005071 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 983917005072 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 983917005073 [2Fe-2S] cluster binding site [ion binding]; other site 983917005074 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 983917005075 alpha subunit interface [polypeptide binding]; other site 983917005076 active site 983917005077 substrate binding site [chemical binding]; other site 983917005078 Fe binding site [ion binding]; other site 983917005079 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 983917005080 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 983917005081 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 983917005082 substrate binding pocket [chemical binding]; other site 983917005083 chain length determination region; other site 983917005084 substrate-Mg2+ binding site; other site 983917005085 catalytic residues [active] 983917005086 aspartate-rich region 1; other site 983917005087 active site lid residues [active] 983917005088 aspartate-rich region 2; other site 983917005089 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 983917005090 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 983917005091 TPP-binding site; other site 983917005092 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 983917005093 PYR/PP interface [polypeptide binding]; other site 983917005094 dimer interface [polypeptide binding]; other site 983917005095 TPP binding site [chemical binding]; other site 983917005096 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983917005097 putative GTP cyclohydrolase; Provisional; Region: PRK13674 983917005098 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 983917005099 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 983917005100 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 983917005101 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 983917005102 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 983917005103 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 983917005104 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 983917005105 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 983917005106 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 983917005107 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 983917005108 Flagellar FliJ protein; Region: FliJ; pfam02050 983917005109 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 983917005110 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 983917005111 Walker A motif/ATP binding site; other site 983917005112 Walker B motif; other site 983917005113 Flagellar assembly protein FliH; Region: FliH; pfam02108 983917005114 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 983917005115 FliG C-terminal domain; Region: FliG_C; pfam01706 983917005116 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 983917005117 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 983917005118 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 983917005119 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 983917005120 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917005121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917005122 metal binding site [ion binding]; metal-binding site 983917005123 active site 983917005124 I-site; other site 983917005125 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 983917005126 Type II transport protein GspH; Region: GspH; pfam12019 983917005127 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 983917005128 Flagellar regulator YcgR; Region: YcgR; pfam07317 983917005129 PilZ domain; Region: PilZ; pfam07238 983917005130 Flagellar protein FliT; Region: FliT; pfam05400 983917005131 Flagellar protein FliS; Region: FliS; cl00654 983917005132 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 983917005133 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 983917005134 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 983917005135 flagellin; Provisional; Region: PRK12802 983917005136 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 983917005137 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 983917005138 flagellin; Provisional; Region: PRK12802 983917005139 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 983917005140 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 983917005141 flagellin; Provisional; Region: PRK12802 983917005142 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 983917005143 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 983917005144 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917005145 binding surface 983917005146 TPR repeat; Region: TPR_11; pfam13414 983917005147 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917005148 TPR repeat; Region: TPR_11; pfam13414 983917005149 binding surface 983917005150 TPR motif; other site 983917005151 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 983917005152 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 983917005153 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917005154 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 983917005155 active site 983917005156 Methyltransferase domain; Region: Methyltransf_24; pfam13578 983917005157 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 983917005158 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 983917005159 S-adenosylmethionine binding site [chemical binding]; other site 983917005160 Methyltransferase domain; Region: Methyltransf_23; pfam13489 983917005161 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 983917005162 S-adenosylmethionine binding site [chemical binding]; other site 983917005163 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983917005164 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 983917005165 active site 983917005166 Protein of unknown function (DUF707); Region: DUF707; pfam05212 983917005167 Methyltransferase domain; Region: Methyltransf_24; pfam13578 983917005168 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 983917005169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917005170 UDP-galactopyranose mutase; Region: GLF; pfam03275 983917005171 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 983917005172 transcriptional activator FlhC; Provisional; Region: PRK12722 983917005173 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 983917005174 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 983917005175 flagellar motor protein MotB; Validated; Region: motB; PRK09041 983917005176 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 983917005177 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917005178 ligand binding site [chemical binding]; other site 983917005179 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 983917005180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005181 active site 983917005182 phosphorylation site [posttranslational modification] 983917005183 intermolecular recognition site; other site 983917005184 dimerization interface [polypeptide binding]; other site 983917005185 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 983917005186 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 983917005187 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 983917005188 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 983917005189 FHIPEP family; Region: FHIPEP; pfam00771 983917005190 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 983917005191 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 983917005192 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 983917005193 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 983917005194 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917005195 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 983917005196 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 983917005197 DNA binding residues [nucleotide binding] 983917005198 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917005199 dimer interface [polypeptide binding]; other site 983917005200 putative CheW interface [polypeptide binding]; other site 983917005201 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005202 putative active site [active] 983917005203 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 983917005204 heme pocket [chemical binding]; other site 983917005205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005206 ATP binding site [chemical binding]; other site 983917005207 Mg2+ binding site [ion binding]; other site 983917005208 G-X-G motif; other site 983917005209 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 983917005210 SAF-like; Region: SAF_2; pfam13144 983917005211 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 983917005212 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 983917005213 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 983917005214 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 983917005215 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005216 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005217 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 983917005218 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 983917005219 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 983917005220 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 983917005221 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005222 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 983917005223 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005224 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 983917005225 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005226 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 983917005227 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 983917005228 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 983917005229 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 983917005230 dimer interface [polypeptide binding]; other site 983917005231 active site 983917005232 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983917005233 Esterase/lipase [General function prediction only]; Region: COG1647 983917005234 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 983917005235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005236 active site 983917005237 phosphorylation site [posttranslational modification] 983917005238 intermolecular recognition site; other site 983917005239 dimerization interface [polypeptide binding]; other site 983917005240 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 983917005241 DNA binding site [nucleotide binding] 983917005242 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 983917005243 sensor protein QseC; Provisional; Region: PRK10337 983917005244 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005245 ATP binding site [chemical binding]; other site 983917005246 G-X-G motif; other site 983917005247 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 983917005248 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005249 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005250 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12701 983917005251 Flagellar L-ring protein; Region: FlgH; pfam02107 983917005252 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 983917005253 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 983917005254 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 983917005255 Rod binding protein; Region: Rod-binding; cl01626 983917005256 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 983917005257 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 983917005258 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005259 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 983917005260 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 983917005261 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 983917005262 PAS fold; Region: PAS_4; pfam08448 983917005263 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005264 putative active site [active] 983917005265 PAS domain; Region: PAS_9; pfam13426 983917005266 PAS domain S-box; Region: sensory_box; TIGR00229 983917005267 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005268 putative active site [active] 983917005269 heme pocket [chemical binding]; other site 983917005270 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 983917005271 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005272 putative active site [active] 983917005273 heme pocket [chemical binding]; other site 983917005274 PAS domain; Region: PAS; smart00091 983917005275 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 983917005276 Histidine kinase; Region: HisKA_2; pfam07568 983917005277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005278 ATP binding site [chemical binding]; other site 983917005279 Mg2+ binding site [ion binding]; other site 983917005280 G-X-G motif; other site 983917005281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005282 active site 983917005283 phosphorylation site [posttranslational modification] 983917005284 intermolecular recognition site; other site 983917005285 dimerization interface [polypeptide binding]; other site 983917005286 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917005287 dimer interface [polypeptide binding]; other site 983917005288 phosphorylation site [posttranslational modification] 983917005289 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005290 ATP binding site [chemical binding]; other site 983917005291 Mg2+ binding site [ion binding]; other site 983917005292 G-X-G motif; other site 983917005293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005294 active site 983917005295 phosphorylation site [posttranslational modification] 983917005296 intermolecular recognition site; other site 983917005297 dimerization interface [polypeptide binding]; other site 983917005298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917005299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917005300 metal binding site [ion binding]; metal-binding site 983917005301 active site 983917005302 I-site; other site 983917005303 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 983917005304 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917005305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917005306 metal binding site [ion binding]; metal-binding site 983917005307 active site 983917005308 I-site; other site 983917005309 DsrE/DsrF-like family; Region: DrsE; cl00672 983917005310 LysE type translocator; Region: LysE; cl00565 983917005311 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 983917005312 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 983917005313 Carbon starvation protein CstA; Region: CstA; pfam02554 983917005314 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 983917005315 Pyruvate formate lyase 1; Region: PFL1; cd01678 983917005316 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 983917005317 coenzyme A binding site [chemical binding]; other site 983917005318 active site 983917005319 catalytic residues [active] 983917005320 glycine loop; other site 983917005321 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 983917005322 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 983917005323 FeS/SAM binding site; other site 983917005324 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 983917005325 (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 983917005326 dimer interaction site [polypeptide binding]; other site 983917005327 substrate-binding tunnel; other site 983917005328 active site 983917005329 catalytic site [active] 983917005330 substrate binding site [chemical binding]; other site 983917005331 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 983917005332 propionate/acetate kinase; Provisional; Region: PRK12379 983917005333 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 983917005334 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 983917005335 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 983917005336 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 983917005337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005338 active site 983917005339 phosphorylation site [posttranslational modification] 983917005340 intermolecular recognition site; other site 983917005341 dimerization interface [polypeptide binding]; other site 983917005342 LytTr DNA-binding domain; Region: LytTR; smart00850 983917005343 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 983917005344 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 983917005345 Histidine kinase; Region: His_kinase; pfam06580 983917005346 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005347 ATP binding site [chemical binding]; other site 983917005348 Mg2+ binding site [ion binding]; other site 983917005349 G-X-G motif; other site 983917005350 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005351 PAS domain; Region: PAS_9; pfam13426 983917005352 putative active site [active] 983917005353 heme pocket [chemical binding]; other site 983917005354 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917005355 PAS domain; Region: PAS_9; pfam13426 983917005356 putative active site [active] 983917005357 heme pocket [chemical binding]; other site 983917005358 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917005359 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917005360 metal binding site [ion binding]; metal-binding site 983917005361 active site 983917005362 I-site; other site 983917005363 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 983917005364 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917005365 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917005366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917005367 dimer interface [polypeptide binding]; other site 983917005368 putative CheW interface [polypeptide binding]; other site 983917005369 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917005370 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 983917005371 dimerization interface [polypeptide binding]; other site 983917005372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917005373 dimer interface [polypeptide binding]; other site 983917005374 putative CheW interface [polypeptide binding]; other site 983917005375 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 983917005376 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917005377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917005378 dimer interface [polypeptide binding]; other site 983917005379 putative CheW interface [polypeptide binding]; other site 983917005380 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917005381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917005382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917005383 dimer interface [polypeptide binding]; other site 983917005384 putative CheW interface [polypeptide binding]; other site 983917005385 Protein of unknown function (DUF461); Region: DUF461; cl01071 983917005386 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 983917005387 Putative amidotransferase; Region: DUF4066; pfam13278 983917005388 conserved cys residue [active] 983917005389 D-ribose pyranase; Provisional; Region: PRK11797 983917005390 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 983917005391 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 983917005392 substrate binding site [chemical binding]; other site 983917005393 dimer interface [polypeptide binding]; other site 983917005394 ATP binding site [chemical binding]; other site 983917005395 transcriptional repressor RbsR; Provisional; Region: PRK10423 983917005396 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 983917005397 DNA binding site [nucleotide binding] 983917005398 domain linker motif; other site 983917005399 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 983917005400 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917005401 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 983917005402 TM-ABC transporter signature motif; other site 983917005403 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 983917005404 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 983917005405 Walker A/P-loop; other site 983917005406 ATP binding site [chemical binding]; other site 983917005407 Q-loop/lid; other site 983917005408 ABC transporter signature motif; other site 983917005409 Walker B; other site 983917005410 D-loop; other site 983917005411 H-loop/switch region; other site 983917005412 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 983917005413 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 983917005414 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 983917005415 ligand binding site [chemical binding]; other site 983917005416 Transposase; Region: HTH_Tnp_1; cl17663 983917005417 putative transposase OrfB; Reviewed; Region: PHA02517 983917005418 Homeodomain-like domain; Region: HTH_32; pfam13565 983917005419 Integrase core domain; Region: rve; pfam00665 983917005420 Integrase core domain; Region: rve_3; pfam13683 983917005421 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 983917005422 transposase/IS protein; Provisional; Region: PRK09183 983917005423 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 983917005424 Walker A motif; other site 983917005425 ATP binding site [chemical binding]; other site 983917005426 Walker B motif; other site 983917005427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 983917005428 Integrase core domain; Region: rve; pfam00665 983917005429 Integrase core domain; Region: rve_3; cl15866 983917005430 NLI interacting factor-like phosphatase; Region: NIF; cl17354 983917005431 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 983917005432 Integrase core domain; Region: rve; pfam00665 983917005433 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 983917005434 AAA domain; Region: AAA_22; pfam13401 983917005435 AAA domain; Region: AAA_17; pfam13207 983917005436 TniQ; Region: TniQ; pfam06527 983917005437 3-epi-6-deoxocathasterone 23-monooxygenase; Provisional; Region: PLN03141 983917005438 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 983917005439 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 983917005440 WYL domain; Region: WYL; pfam13280 983917005441 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 983917005442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917005443 Walker A/P-loop; other site 983917005444 ATP binding site [chemical binding]; other site 983917005445 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 983917005446 tellurite resistance protein terB; Region: terB; cd07176 983917005447 putative metal binding site [ion binding]; other site 983917005448 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 983917005449 AAA ATPase domain; Region: AAA_16; pfam13191 983917005450 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 983917005451 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 983917005452 ATP binding site [chemical binding]; other site 983917005453 putative Mg++ binding site [ion binding]; other site 983917005454 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 983917005455 nucleotide binding region [chemical binding]; other site 983917005456 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 983917005457 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 983917005458 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 983917005459 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 983917005460 ligand binding site [chemical binding]; other site 983917005461 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 983917005462 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 983917005463 ATP binding site [chemical binding]; other site 983917005464 putative Mg++ binding site [ion binding]; other site 983917005465 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 983917005466 nucleotide binding region [chemical binding]; other site 983917005467 ATP-binding site [chemical binding]; other site 983917005468 Restriction endonuclease; Region: Mrr_cat; pfam04471 983917005469 H-NS histone family; Region: Histone_HNS; pfam00816 983917005470 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 983917005471 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 983917005472 putative active site [active] 983917005473 putative PHP Thumb interface [polypeptide binding]; other site 983917005474 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 983917005475 generic binding surface I; other site 983917005476 generic binding surface II; other site 983917005477 DNA Polymerase Y-family; Region: PolY_like; cd03468 983917005478 DNA binding site [nucleotide binding] 983917005479 Uncharacterized conserved protein [Function unknown]; Region: COG4544 983917005480 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 983917005481 Protein of unknown function (DUF938); Region: DUF938; pfam06080 983917005482 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 983917005483 PhoH-like protein; Region: PhoH; cl17668 983917005484 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 983917005485 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 983917005486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917005487 ABC transporter signature motif; other site 983917005488 Walker B; other site 983917005489 D-loop; other site 983917005490 H-loop/switch region; other site 983917005491 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 983917005492 putative active site [active] 983917005493 putative metal-binding site [ion binding]; other site 983917005494 potential frameshift: common BLAST hit: gi|319763375|ref|YP_004127312.1| integrase family protein 983917005495 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 983917005496 DNA binding site [nucleotide binding] 983917005497 Int/Topo IB signature motif; other site 983917005498 active site 983917005499 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 983917005500 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 983917005501 Zinc-dependent metalloprotease, matrix metalloproteinase (MMP) sub-family. MMPs are responsible for a great deal of pericellular proteolysis of extracellular matrix and cell surface molecules, playing crucial roles in morphogenesis, cell fate...; Region: ZnMc_MMP; cd04278 983917005502 TIMP-binding surface; other site 983917005503 active site 983917005504 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 983917005505 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 983917005506 active site 983917005507 metal binding site [ion binding]; metal-binding site 983917005508 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 983917005509 Domain of unknown function DUF21; Region: DUF21; pfam01595 983917005510 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 983917005511 Transporter associated domain; Region: CorC_HlyC; smart01091 983917005512 SapC; Region: SapC; pfam07277 983917005513 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 983917005514 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 983917005515 FMN binding site [chemical binding]; other site 983917005516 active site 983917005517 catalytic residues [active] 983917005518 substrate binding site [chemical binding]; other site 983917005519 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 983917005520 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 983917005521 interface (dimer of trimers) [polypeptide binding]; other site 983917005522 Substrate-binding/catalytic site; other site 983917005523 Zn-binding sites [ion binding]; other site 983917005524 Predicted integral membrane protein [Function unknown]; Region: COG5652 983917005525 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 983917005526 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 983917005527 osmolarity response regulator; Provisional; Region: ompR; PRK09468 983917005528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005529 active site 983917005530 phosphorylation site [posttranslational modification] 983917005531 intermolecular recognition site; other site 983917005532 dimerization interface [polypeptide binding]; other site 983917005533 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 983917005534 DNA binding site [nucleotide binding] 983917005535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917005536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005537 ATP binding site [chemical binding]; other site 983917005538 Mg2+ binding site [ion binding]; other site 983917005539 G-X-G motif; other site 983917005540 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 983917005541 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 983917005542 dimer interface [polypeptide binding]; other site 983917005543 TPP-binding site [chemical binding]; other site 983917005544 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 983917005545 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 983917005546 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 983917005547 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 983917005548 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 983917005549 dimer interface [polypeptide binding]; other site 983917005550 active site 983917005551 CoA binding pocket [chemical binding]; other site 983917005552 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 983917005553 S-adenosylmethionine binding site [chemical binding]; other site 983917005554 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 983917005555 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 983917005556 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 983917005557 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 983917005558 Walker A/P-loop; other site 983917005559 ATP binding site [chemical binding]; other site 983917005560 Q-loop/lid; other site 983917005561 ABC transporter signature motif; other site 983917005562 Walker B; other site 983917005563 D-loop; other site 983917005564 H-loop/switch region; other site 983917005565 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 983917005566 Walker A/P-loop; other site 983917005567 ATP binding site [chemical binding]; other site 983917005568 Q-loop/lid; other site 983917005569 ABC transporter signature motif; other site 983917005570 Walker B; other site 983917005571 D-loop; other site 983917005572 H-loop/switch region; other site 983917005573 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 983917005574 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 983917005575 HlyD family secretion protein; Region: HlyD; pfam00529 983917005576 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917005577 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917005578 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917005579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917005580 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917005581 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917005582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005583 ATP binding site [chemical binding]; other site 983917005584 G-X-G motif; other site 983917005585 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917005586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005587 active site 983917005588 phosphorylation site [posttranslational modification] 983917005589 intermolecular recognition site; other site 983917005590 dimerization interface [polypeptide binding]; other site 983917005591 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 983917005592 DNA binding site [nucleotide binding] 983917005593 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 983917005594 AMP binding site [chemical binding]; other site 983917005595 metal binding site [ion binding]; metal-binding site 983917005596 active site 983917005597 aminopeptidase N; Provisional; Region: pepN; PRK14015 983917005598 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 983917005599 Zn binding site [ion binding]; other site 983917005600 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 983917005601 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 983917005602 motif II; other site 983917005603 peptide chain release factor 2; Validated; Region: prfB; PRK00578 983917005604 This domain is found in peptide chain release factors; Region: PCRF; smart00937 983917005605 RF-1 domain; Region: RF-1; pfam00472 983917005606 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917005607 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 983917005608 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 983917005609 catalytic site [active] 983917005610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917005611 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 983917005612 Coenzyme A binding pocket [chemical binding]; other site 983917005613 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 983917005614 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 983917005615 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 983917005616 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 983917005617 active site 983917005618 acyl-activating enzyme (AAE) consensus motif; other site 983917005619 putative CoA binding site [chemical binding]; other site 983917005620 AMP binding site [chemical binding]; other site 983917005621 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 983917005622 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 983917005623 active site 983917005624 catalytic tetrad [active] 983917005625 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 983917005626 putative deacylase active site [active] 983917005627 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 983917005628 DNA binding residues [nucleotide binding] 983917005629 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917005630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005631 active site 983917005632 phosphorylation site [posttranslational modification] 983917005633 intermolecular recognition site; other site 983917005634 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 983917005635 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 983917005636 homotrimer interaction site [polypeptide binding]; other site 983917005637 putative active site [active] 983917005638 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 983917005639 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 983917005640 fumarate hydratase FumB; Provisional; Region: PRK15391 983917005641 Fumarase C-terminus; Region: Fumerase_C; pfam05683 983917005642 hypothetical protein; Provisional; Region: PRK05208 983917005643 acetyl-CoA synthetase; Provisional; Region: PRK00174 983917005644 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 983917005645 active site 983917005646 CoA binding site [chemical binding]; other site 983917005647 acyl-activating enzyme (AAE) consensus motif; other site 983917005648 AMP binding site [chemical binding]; other site 983917005649 acetate binding site [chemical binding]; other site 983917005650 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 983917005651 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 983917005652 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 983917005653 active site 983917005654 catalytic site [active] 983917005655 substrate binding site [chemical binding]; other site 983917005656 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917005657 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917005658 ligand binding site [chemical binding]; other site 983917005659 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 983917005660 active site 983917005661 SAM binding site [chemical binding]; other site 983917005662 homodimer interface [polypeptide binding]; other site 983917005663 NnrS protein; Region: NnrS; pfam05940 983917005664 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 983917005665 Precorrin-8X methylmutase; Region: CbiC; pfam02570 983917005666 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 983917005667 active site 983917005668 SAM binding site [chemical binding]; other site 983917005669 homodimer interface [polypeptide binding]; other site 983917005670 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 983917005671 active site 983917005672 homodimer interface [polypeptide binding]; other site 983917005673 SAM binding site [chemical binding]; other site 983917005674 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 983917005675 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 983917005676 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 983917005677 putative homodimer interface [polypeptide binding]; other site 983917005678 active site 983917005679 SAM binding site [chemical binding]; other site 983917005680 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 983917005681 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 983917005682 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 983917005683 active site 983917005684 SAM binding site [chemical binding]; other site 983917005685 homodimer interface [polypeptide binding]; other site 983917005686 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 983917005687 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 983917005688 CHASE3 domain; Region: CHASE3; pfam05227 983917005689 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917005690 dimer interface [polypeptide binding]; other site 983917005691 phosphorylation site [posttranslational modification] 983917005692 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917005693 ATP binding site [chemical binding]; other site 983917005694 Mg2+ binding site [ion binding]; other site 983917005695 G-X-G motif; other site 983917005696 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917005697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005698 active site 983917005699 phosphorylation site [posttranslational modification] 983917005700 intermolecular recognition site; other site 983917005701 dimerization interface [polypeptide binding]; other site 983917005702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917005703 LysR family transcriptional regulator; Provisional; Region: PRK14997 983917005704 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 983917005705 putative effector binding pocket; other site 983917005706 dimerization interface [polypeptide binding]; other site 983917005707 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 983917005708 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 983917005709 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 983917005710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917005711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917005712 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 983917005713 putative substrate binding pocket [chemical binding]; other site 983917005714 putative dimerization interface [polypeptide binding]; other site 983917005715 Fusaric acid resistance protein family; Region: FUSC; pfam04632 983917005716 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 983917005717 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 983917005718 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917005719 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917005720 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917005721 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917005722 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 983917005723 DNA binding residues [nucleotide binding] 983917005724 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 983917005725 active site 983917005726 DNA binding site [nucleotide binding] 983917005727 Int/Topo IB signature motif; other site 983917005728 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 983917005729 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 983917005730 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 983917005731 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 983917005732 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917005733 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 983917005734 metal binding site [ion binding]; metal-binding site 983917005735 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 983917005736 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 983917005737 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 983917005738 catalytic site [active] 983917005739 active site 983917005740 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 983917005741 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 983917005742 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917005743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917005744 metal binding site [ion binding]; metal-binding site 983917005745 active site 983917005746 I-site; other site 983917005747 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 983917005748 active site 983917005749 SAM binding site [chemical binding]; other site 983917005750 homodimer interface [polypeptide binding]; other site 983917005751 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 983917005752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917005753 Coenzyme A binding pocket [chemical binding]; other site 983917005754 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 983917005755 S-adenosylmethionine binding site [chemical binding]; other site 983917005756 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 983917005757 Beta-lactamase; Region: Beta-lactamase; pfam00144 983917005758 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 983917005759 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 983917005760 NosL; Region: NosL; cl01769 983917005761 NosL; Region: NosL; pfam05573 983917005762 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 983917005763 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 983917005764 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 983917005765 Walker A/P-loop; other site 983917005766 ATP binding site [chemical binding]; other site 983917005767 Q-loop/lid; other site 983917005768 ABC transporter signature motif; other site 983917005769 Walker B; other site 983917005770 D-loop; other site 983917005771 H-loop/switch region; other site 983917005772 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 983917005773 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 983917005774 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 983917005775 4Fe-4S binding domain; Region: Fer4_5; pfam12801 983917005776 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 983917005777 nitrous-oxide reductase; Validated; Region: PRK02888 983917005778 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 983917005779 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 983917005780 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 983917005781 ApbE family; Region: ApbE; pfam02424 983917005782 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 983917005783 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917005784 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 983917005785 N-terminal plug; other site 983917005786 ligand-binding site [chemical binding]; other site 983917005787 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 983917005788 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 983917005789 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 983917005790 active site 983917005791 SAM binding site [chemical binding]; other site 983917005792 homodimer interface [polypeptide binding]; other site 983917005793 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 983917005794 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 983917005795 non-specific DNA binding site [nucleotide binding]; other site 983917005796 salt bridge; other site 983917005797 sequence-specific DNA binding site [nucleotide binding]; other site 983917005798 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 983917005799 Domain of unknown function (DUF955); Region: DUF955; pfam06114 983917005800 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 983917005801 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 983917005802 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 983917005803 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 983917005804 Walker A/P-loop; other site 983917005805 ATP binding site [chemical binding]; other site 983917005806 Q-loop/lid; other site 983917005807 ABC transporter signature motif; other site 983917005808 Walker B; other site 983917005809 D-loop; other site 983917005810 H-loop/switch region; other site 983917005811 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 983917005812 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 983917005813 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 983917005814 active site 983917005815 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 983917005816 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917005817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917005818 active site 983917005819 phosphorylation site [posttranslational modification] 983917005820 intermolecular recognition site; other site 983917005821 dimerization interface [polypeptide binding]; other site 983917005822 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 983917005823 DNA binding residues [nucleotide binding] 983917005824 dimerization interface [polypeptide binding]; other site 983917005825 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 983917005826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917005827 Coenzyme A binding pocket [chemical binding]; other site 983917005828 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917005829 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917005830 metal binding site [ion binding]; metal-binding site 983917005831 active site 983917005832 I-site; other site 983917005833 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 983917005834 Predicted permease [General function prediction only]; Region: COG2985 983917005835 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 983917005836 TrkA-C domain; Region: TrkA_C; pfam02080 983917005837 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 983917005838 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 983917005839 active site 983917005840 oligomerization interface [polypeptide binding]; other site 983917005841 metal binding site [ion binding]; metal-binding site 983917005842 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 983917005843 active site 983917005844 nucleotide binding site [chemical binding]; other site 983917005845 HIGH motif; other site 983917005846 KMSKS motif; other site 983917005847 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 983917005848 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 983917005849 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 983917005850 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 983917005851 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 983917005852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917005853 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 983917005854 substrate binding site [chemical binding]; other site 983917005855 dimerization interface [polypeptide binding]; other site 983917005856 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 983917005857 flagellin; Provisional; Region: PRK12804 983917005858 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 983917005859 TPR repeat; Region: TPR_11; pfam13414 983917005860 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 983917005861 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 983917005862 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 983917005863 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917005864 Zn2+ binding site [ion binding]; other site 983917005865 Mg2+ binding site [ion binding]; other site 983917005866 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 983917005867 active site 983917005868 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 983917005869 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 983917005870 active site 983917005871 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 983917005872 FHIPEP family; Region: FHIPEP; pfam00771 983917005873 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 983917005874 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 983917005875 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 983917005876 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 983917005877 FliP family; Region: FliP; cl00593 983917005878 flagellar motor switch protein FliN; Region: fliN; TIGR02480 983917005879 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 983917005880 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 983917005881 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 983917005882 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 983917005883 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 983917005884 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 983917005885 MgtE intracellular N domain; Region: MgtE_N; cl15244 983917005886 FliG C-terminal domain; Region: FliG_C; pfam01706 983917005887 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 983917005888 Flagellar assembly protein FliH; Region: FliH; pfam02108 983917005889 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 983917005890 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 983917005891 Walker A motif; other site 983917005892 ATP binding site [chemical binding]; other site 983917005893 Walker B motif; other site 983917005894 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 983917005895 Flagellar protein FliS; Region: FliS; cl00654 983917005896 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 983917005897 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 983917005898 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 983917005899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917005900 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 983917005901 DNA binding residues [nucleotide binding] 983917005902 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 983917005903 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 983917005904 hypothetical protein; Validated; Region: PRK06778 983917005905 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917005906 ligand binding site [chemical binding]; other site 983917005907 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 983917005908 FlgN protein; Region: FlgN; pfam05130 983917005909 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 983917005910 SAF-like; Region: SAF_2; pfam13144 983917005911 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 983917005912 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 983917005913 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 983917005914 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 983917005915 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005916 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005917 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 983917005918 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 983917005919 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 983917005920 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 983917005921 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005922 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 983917005923 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005924 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 983917005925 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 983917005926 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 983917005927 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005928 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 983917005929 Flagellar L-ring protein; Region: FlgH; pfam02107 983917005930 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 983917005931 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 983917005932 Rod binding protein; Region: Rod-binding; cl01626 983917005933 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 983917005934 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 983917005935 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 983917005936 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 983917005937 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 983917005938 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 983917005939 homodimer interface [polypeptide binding]; other site 983917005940 substrate-cofactor binding pocket; other site 983917005941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917005942 catalytic residue [active] 983917005943 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917005944 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 983917005945 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 983917005946 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917005947 catalytic residue [active] 983917005948 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 983917005949 Uncharacterized conserved protein [Function unknown]; Region: COG1739 983917005950 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 983917005951 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 983917005952 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 983917005953 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 983917005954 putative active site [active] 983917005955 putative metal binding site [ion binding]; other site 983917005956 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 983917005957 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 983917005958 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 983917005959 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 983917005960 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983917005961 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 983917005962 putative NAD(P) binding site [chemical binding]; other site 983917005963 putative active site [active] 983917005964 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 983917005965 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 983917005966 homodimer interface [polypeptide binding]; other site 983917005967 substrate-cofactor binding pocket; other site 983917005968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917005969 catalytic residue [active] 983917005970 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 983917005971 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 983917005972 dimer interface [polypeptide binding]; other site 983917005973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917005974 catalytic residue [active] 983917005975 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 983917005976 FOG: CBS domain [General function prediction only]; Region: COG0517 983917005977 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 983917005978 active site residue [active] 983917005979 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 983917005980 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 983917005981 dimer interface [polypeptide binding]; other site 983917005982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917005983 catalytic residue [active] 983917005984 serine O-acetyltransferase; Region: cysE; TIGR01172 983917005985 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 983917005986 trimer interface [polypeptide binding]; other site 983917005987 active site 983917005988 substrate binding site [chemical binding]; other site 983917005989 CoA binding site [chemical binding]; other site 983917005990 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 983917005991 non-specific DNA binding site [nucleotide binding]; other site 983917005992 salt bridge; other site 983917005993 sequence-specific DNA binding site [nucleotide binding]; other site 983917005994 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 983917005995 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917005996 substrate binding pocket [chemical binding]; other site 983917005997 membrane-bound complex binding site; other site 983917005998 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 983917005999 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917006000 substrate binding pocket [chemical binding]; other site 983917006001 membrane-bound complex binding site; other site 983917006002 hinge residues; other site 983917006003 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006004 dimer interface [polypeptide binding]; other site 983917006005 phosphorylation site [posttranslational modification] 983917006006 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006007 ATP binding site [chemical binding]; other site 983917006008 G-X-G motif; other site 983917006009 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917006010 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006011 active site 983917006012 phosphorylation site [posttranslational modification] 983917006013 intermolecular recognition site; other site 983917006014 dimerization interface [polypeptide binding]; other site 983917006015 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 983917006016 putative active site [active] 983917006017 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 983917006018 Uncharacterized conserved protein [Function unknown]; Region: COG3791 983917006019 Cytochrome c; Region: Cytochrom_C; pfam00034 983917006020 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 983917006021 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 983917006022 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 983917006023 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 983917006024 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 983917006025 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 983917006026 FMN binding site [chemical binding]; other site 983917006027 dimer interface [polypeptide binding]; other site 983917006028 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 983917006029 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 983917006030 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 983917006031 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 983917006032 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 983917006033 putative [Fe4-S4] binding site [ion binding]; other site 983917006034 putative molybdopterin cofactor binding site [chemical binding]; other site 983917006035 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 983917006036 molybdopterin cofactor binding site; other site 983917006037 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 983917006038 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 983917006039 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917006040 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917006041 dimer interface [polypeptide binding]; other site 983917006042 putative CheW interface [polypeptide binding]; other site 983917006043 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 983917006044 HD domain; Region: HD_3; cl17350 983917006045 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917006046 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917006047 TPR motif; other site 983917006048 binding surface 983917006049 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917006050 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 983917006051 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 983917006052 Na2 binding site [ion binding]; other site 983917006053 putative substrate binding site 1 [chemical binding]; other site 983917006054 Na binding site 1 [ion binding]; other site 983917006055 putative substrate binding site 2 [chemical binding]; other site 983917006056 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 983917006057 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 983917006058 active site triad [active] 983917006059 DTW domain; Region: DTW; cl01221 983917006060 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917006061 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 983917006062 DNA binding residues [nucleotide binding] 983917006063 dimerization interface [polypeptide binding]; other site 983917006064 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 983917006065 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006066 ATP binding site [chemical binding]; other site 983917006067 Mg2+ binding site [ion binding]; other site 983917006068 G-X-G motif; other site 983917006069 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 983917006070 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 983917006071 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 983917006072 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 983917006073 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 983917006074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917006075 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 983917006076 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 983917006077 substrate binding site [chemical binding]; other site 983917006078 tetramer interface [polypeptide binding]; other site 983917006079 catalytic residue [active] 983917006080 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 983917006081 active site 983917006082 Mn binding site [ion binding]; other site 983917006083 PAS fold; Region: PAS_4; pfam08448 983917006084 GAF domain; Region: GAF_3; pfam13492 983917006085 GAF domain; Region: GAF_2; pfam13185 983917006086 PAS fold; Region: PAS_4; pfam08448 983917006087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006088 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006089 dimer interface [polypeptide binding]; other site 983917006090 phosphorylation site [posttranslational modification] 983917006091 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006092 ATP binding site [chemical binding]; other site 983917006093 Mg2+ binding site [ion binding]; other site 983917006094 G-X-G motif; other site 983917006095 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006097 active site 983917006098 phosphorylation site [posttranslational modification] 983917006099 intermolecular recognition site; other site 983917006100 dimerization interface [polypeptide binding]; other site 983917006101 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 983917006102 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 983917006103 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 983917006104 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 983917006105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917006106 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 983917006107 dimerization interface [polypeptide binding]; other site 983917006108 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 983917006109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006110 active site 983917006111 phosphorylation site [posttranslational modification] 983917006112 intermolecular recognition site; other site 983917006113 dimerization interface [polypeptide binding]; other site 983917006114 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 983917006115 DNA binding site [nucleotide binding] 983917006116 sensor protein KdpD; Provisional; Region: PRK10490 983917006117 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 983917006118 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 983917006119 Ligand Binding Site [chemical binding]; other site 983917006120 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 983917006121 GAF domain; Region: GAF_3; pfam13492 983917006122 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006123 dimer interface [polypeptide binding]; other site 983917006124 phosphorylation site [posttranslational modification] 983917006125 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006126 ATP binding site [chemical binding]; other site 983917006127 Mg2+ binding site [ion binding]; other site 983917006128 G-X-G motif; other site 983917006129 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 983917006130 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 983917006131 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983917006132 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 983917006133 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 983917006134 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 983917006135 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 983917006136 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 983917006137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917006138 NAD(P) binding site [chemical binding]; other site 983917006139 active site 983917006140 Predicted transcriptional regulators [Transcription]; Region: COG1733 983917006141 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 983917006142 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 983917006143 arsenical-resistance protein; Region: acr3; TIGR00832 983917006144 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 983917006145 Low molecular weight phosphatase family; Region: LMWPc; cd00115 983917006146 active site 983917006147 Low molecular weight phosphatase family; Region: LMWPc; cd00115 983917006148 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 983917006149 active site 983917006150 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 983917006151 putative DNA binding site [nucleotide binding]; other site 983917006152 putative Zn2+ binding site [ion binding]; other site 983917006153 Methyltransferase domain; Region: Methyltransf_31; pfam13847 983917006154 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 983917006155 S-adenosylmethionine binding site [chemical binding]; other site 983917006156 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 983917006157 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 983917006158 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917006159 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 983917006160 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 983917006161 N-terminal plug; other site 983917006162 ligand-binding site [chemical binding]; other site 983917006163 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 983917006164 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 983917006165 TOBE domain; Region: TOBE; cl01440 983917006166 molybdenum-pterin binding domain; Region: Mop; TIGR00638 983917006167 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 983917006168 intracellular protease, PfpI family; Region: PfpI; TIGR01382 983917006169 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 983917006170 conserved cys residue [active] 983917006171 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 983917006172 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983917006173 Walker A/P-loop; other site 983917006174 ATP binding site [chemical binding]; other site 983917006175 Q-loop/lid; other site 983917006176 ABC transporter signature motif; other site 983917006177 Walker B; other site 983917006178 D-loop; other site 983917006179 H-loop/switch region; other site 983917006180 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 983917006181 dimer interface [polypeptide binding]; other site 983917006182 conserved gate region; other site 983917006183 ABC-ATPase subunit interface; other site 983917006184 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 983917006185 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 983917006186 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 983917006187 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 983917006188 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917006189 acyl-activating enzyme (AAE) consensus motif; other site 983917006190 AMP binding site [chemical binding]; other site 983917006191 active site 983917006192 CoA binding site [chemical binding]; other site 983917006193 DEAD/DEAH box helicase; Region: DEAD; pfam00270 983917006194 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 983917006195 nucleotide binding region [chemical binding]; other site 983917006196 ATP-binding site [chemical binding]; other site 983917006197 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 983917006198 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 983917006199 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 983917006200 ferredoxin; Provisional; Region: PRK08764 983917006201 Putative Fe-S cluster; Region: FeS; cl17515 983917006202 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 983917006203 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 983917006204 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 983917006205 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 983917006206 dimer interface [polypeptide binding]; other site 983917006207 PYR/PP interface [polypeptide binding]; other site 983917006208 TPP binding site [chemical binding]; other site 983917006209 substrate binding site [chemical binding]; other site 983917006210 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 983917006211 4Fe-4S binding domain; Region: Fer4_6; pfam12837 983917006212 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 983917006213 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 983917006214 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 983917006215 TPP-binding site [chemical binding]; other site 983917006216 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 983917006217 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 983917006218 SLBB domain; Region: SLBB; pfam10531 983917006219 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 983917006220 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 983917006221 FMN-binding domain; Region: FMN_bind; cl01081 983917006222 electron transport complex RsxE subunit; Provisional; Region: PRK12405 983917006223 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 983917006224 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 983917006225 FAD binding pocket [chemical binding]; other site 983917006226 conserved FAD binding motif [chemical binding]; other site 983917006227 phosphate binding motif [ion binding]; other site 983917006228 beta-alpha-beta structure motif; other site 983917006229 NAD binding pocket [chemical binding]; other site 983917006230 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 983917006231 ApbE family; Region: ApbE; pfam02424 983917006232 Peptidase M15; Region: Peptidase_M15_3; cl01194 983917006233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 983917006234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 983917006235 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 983917006236 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 983917006237 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 983917006238 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 983917006239 dimer interface [polypeptide binding]; other site 983917006240 active site 983917006241 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 983917006242 CoA-transferase family III; Region: CoA_transf_3; pfam02515 983917006243 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983917006244 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917006245 active site 983917006246 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 983917006247 HipA-like N-terminal domain; Region: HipA_N; pfam07805 983917006248 HipA-like C-terminal domain; Region: HipA_C; pfam07804 983917006249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983917006250 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917006251 active site 983917006252 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 983917006253 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 983917006254 Ferredoxin [Energy production and conversion]; Region: COG1146 983917006255 4Fe-4S binding domain; Region: Fer4; cl02805 983917006256 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 983917006257 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 983917006258 CHASE2 domain; Region: CHASE2; pfam05226 983917006259 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006260 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006261 dimer interface [polypeptide binding]; other site 983917006262 phosphorylation site [posttranslational modification] 983917006263 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006264 ATP binding site [chemical binding]; other site 983917006265 Mg2+ binding site [ion binding]; other site 983917006266 G-X-G motif; other site 983917006267 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006269 active site 983917006270 phosphorylation site [posttranslational modification] 983917006271 intermolecular recognition site; other site 983917006272 dimerization interface [polypeptide binding]; other site 983917006273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 983917006274 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917006275 FecR protein; Region: FecR; pfam04773 983917006276 pyruvate phosphate dikinase; Provisional; Region: PRK09279 983917006277 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 983917006278 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 983917006279 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 983917006280 Cytochrome c; Region: Cytochrom_C; cl11414 983917006281 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917006282 Cytochrome c; Region: Cytochrom_C; pfam00034 983917006283 Cytochrome c; Region: Cytochrom_C; cl11414 983917006284 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917006285 Cytochrome c; Region: Cytochrom_C; cl11414 983917006286 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 983917006287 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 983917006288 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 983917006289 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 983917006290 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983917006291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917006292 pyruvate carboxylase; Reviewed; Region: PRK12999 983917006293 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917006294 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917006295 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 983917006296 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 983917006297 active site 983917006298 catalytic residues [active] 983917006299 metal binding site [ion binding]; metal-binding site 983917006300 homodimer binding site [polypeptide binding]; other site 983917006301 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 983917006302 carboxyltransferase (CT) interaction site; other site 983917006303 biotinylation site [posttranslational modification]; other site 983917006304 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 983917006305 Iron-sulfur protein interface; other site 983917006306 proximal quinone binding site [chemical binding]; other site 983917006307 C-subunit interface; other site 983917006308 distal quinone binding site; other site 983917006309 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 983917006310 Iron-sulfur protein interface; other site 983917006311 proximal heme binding site [chemical binding]; other site 983917006312 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 983917006313 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 983917006314 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 983917006315 L-aspartate oxidase; Provisional; Region: PRK06175 983917006316 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 983917006317 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006319 active site 983917006320 phosphorylation site [posttranslational modification] 983917006321 intermolecular recognition site; other site 983917006322 dimerization interface [polypeptide binding]; other site 983917006323 Phospholipid methyltransferase; Region: PEMT; cl17370 983917006324 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 983917006325 S-adenosylmethionine binding site [chemical binding]; other site 983917006326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917006327 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 983917006328 Uncharacterized conserved protein [Function unknown]; Region: COG3791 983917006329 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 983917006330 metal binding site 2 [ion binding]; metal-binding site 983917006331 putative DNA binding helix; other site 983917006332 metal binding site 1 [ion binding]; metal-binding site 983917006333 structural Zn2+ binding site [ion binding]; other site 983917006334 Predicted transcriptional regulator [Transcription]; Region: COG1959 983917006335 Transcriptional regulator; Region: Rrf2; cl17282 983917006336 NnrS protein; Region: NnrS; pfam05940 983917006337 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 983917006338 CoenzymeA binding site [chemical binding]; other site 983917006339 subunit interaction site [polypeptide binding]; other site 983917006340 PHB binding site; other site 983917006341 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 983917006342 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 983917006343 FeS/SAM binding site; other site 983917006344 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 983917006345 PAS fold; Region: PAS_4; pfam08448 983917006346 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 983917006347 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 983917006348 Walker A motif; other site 983917006349 ATP binding site [chemical binding]; other site 983917006350 Walker B motif; other site 983917006351 arginine finger; other site 983917006352 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917006353 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 983917006354 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 983917006355 [2Fe-2S] cluster binding site [ion binding]; other site 983917006356 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 983917006357 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 983917006358 FAD binding pocket [chemical binding]; other site 983917006359 FAD binding motif [chemical binding]; other site 983917006360 phosphate binding motif [ion binding]; other site 983917006361 beta-alpha-beta structure motif; other site 983917006362 NAD binding pocket [chemical binding]; other site 983917006363 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 983917006364 catalytic residues [active] 983917006365 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 983917006366 nudix motif; other site 983917006367 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917006368 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 983917006369 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 983917006370 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 983917006371 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 983917006372 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 983917006373 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917006374 YaeQ protein; Region: YaeQ; pfam07152 983917006375 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 983917006376 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 983917006377 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 983917006378 active site 983917006379 Zn binding site [ion binding]; other site 983917006380 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006381 PAS fold; Region: PAS_3; pfam08447 983917006382 putative active site [active] 983917006383 heme pocket [chemical binding]; other site 983917006384 PAS fold; Region: PAS_3; pfam08447 983917006385 PAS fold; Region: PAS_3; pfam08447 983917006386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006387 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006388 dimer interface [polypeptide binding]; other site 983917006389 phosphorylation site [posttranslational modification] 983917006390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006391 ATP binding site [chemical binding]; other site 983917006392 Mg2+ binding site [ion binding]; other site 983917006393 G-X-G motif; other site 983917006394 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006396 active site 983917006397 phosphorylation site [posttranslational modification] 983917006398 intermolecular recognition site; other site 983917006399 dimerization interface [polypeptide binding]; other site 983917006400 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983917006401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006402 active site 983917006403 phosphorylation site [posttranslational modification] 983917006404 intermolecular recognition site; other site 983917006405 dimerization interface [polypeptide binding]; other site 983917006406 LytTr DNA-binding domain; Region: LytTR; smart00850 983917006407 Histidine kinase; Region: His_kinase; pfam06580 983917006408 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983917006409 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 983917006410 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 983917006411 active site 983917006412 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 983917006413 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 983917006414 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917006415 Walker A/P-loop; other site 983917006416 ATP binding site [chemical binding]; other site 983917006417 Q-loop/lid; other site 983917006418 ABC transporter signature motif; other site 983917006419 Walker B; other site 983917006420 D-loop; other site 983917006421 H-loop/switch region; other site 983917006422 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 983917006423 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917006424 FtsX-like permease family; Region: FtsX; pfam02687 983917006425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 983917006426 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 983917006427 DHH family; Region: DHH; pfam01368 983917006428 DHHA1 domain; Region: DHHA1; pfam02272 983917006429 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 983917006430 catalytic residues [active] 983917006431 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 983917006432 metal ion-dependent adhesion site (MIDAS); other site 983917006433 Protein of unknown function DUF58; Region: DUF58; pfam01882 983917006434 MoxR-like ATPases [General function prediction only]; Region: COG0714 983917006435 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 983917006436 Walker A motif; other site 983917006437 ATP binding site [chemical binding]; other site 983917006438 Walker B motif; other site 983917006439 arginine finger; other site 983917006440 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917006441 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 983917006442 active site 983917006443 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 983917006444 putative active site [active] 983917006445 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 983917006446 lipoprotein NlpI; Provisional; Region: PRK11189 983917006447 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917006448 binding surface 983917006449 TPR motif; other site 983917006450 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 983917006451 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 983917006452 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 983917006453 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 983917006454 Walker A motif; other site 983917006455 ATP binding site [chemical binding]; other site 983917006456 Walker B motif; other site 983917006457 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 983917006458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 983917006459 Transmembrane secretion effector; Region: MFS_3; pfam05977 983917006460 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 983917006461 putative substrate translocation pore; other site 983917006462 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 983917006463 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 983917006464 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 983917006465 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 983917006466 EamA-like transporter family; Region: EamA; pfam00892 983917006467 short chain dehydrogenase; Provisional; Region: PRK08339 983917006468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917006469 NAD(P) binding site [chemical binding]; other site 983917006470 active site 983917006471 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 983917006472 catalytic residues [active] 983917006473 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 983917006474 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 983917006475 metal ion-dependent adhesion site (MIDAS); other site 983917006476 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 983917006477 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917006478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917006479 metal binding site [ion binding]; metal-binding site 983917006480 active site 983917006481 I-site; other site 983917006482 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983917006483 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917006484 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917006485 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 983917006486 putative metal binding site [ion binding]; other site 983917006487 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 983917006488 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 983917006489 Protein of unknown function, DUF399; Region: DUF399; cl01139 983917006490 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917006491 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917006492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917006493 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 983917006494 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917006495 ligand binding site [chemical binding]; other site 983917006496 flexible hinge region; other site 983917006497 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 983917006498 non-specific DNA interactions [nucleotide binding]; other site 983917006499 DNA binding site [nucleotide binding] 983917006500 sequence specific DNA binding site [nucleotide binding]; other site 983917006501 putative cAMP binding site [chemical binding]; other site 983917006502 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 983917006503 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 983917006504 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983917006505 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 983917006506 Soluble P-type ATPase [General function prediction only]; Region: COG4087 983917006507 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 983917006508 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 983917006509 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 983917006510 putative dimer interface [polypeptide binding]; other site 983917006511 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 983917006512 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 983917006513 putative dimer interface [polypeptide binding]; other site 983917006514 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 983917006515 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 983917006516 putative dimer interface [polypeptide binding]; other site 983917006517 Transposase; Region: DEDD_Tnp_IS110; pfam01548 983917006518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 983917006519 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 983917006520 SEC-C motif; Region: SEC-C; pfam02810 983917006521 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 983917006522 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 983917006523 Phosphoesterase family; Region: Phosphoesterase; pfam04185 983917006524 Domain of unknown function (DUF756); Region: DUF756; pfam05506 983917006525 Domain of unknown function (DUF756); Region: DUF756; pfam05506 983917006526 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 983917006527 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 983917006528 HSP70 interaction site [polypeptide binding]; other site 983917006529 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 983917006530 substrate binding site [polypeptide binding]; other site 983917006531 dimer interface [polypeptide binding]; other site 983917006532 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 983917006533 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917006534 Walker A/P-loop; other site 983917006535 ATP binding site [chemical binding]; other site 983917006536 Q-loop/lid; other site 983917006537 ABC transporter signature motif; other site 983917006538 Walker B; other site 983917006539 D-loop; other site 983917006540 H-loop/switch region; other site 983917006541 Cytochrome c; Region: Cytochrom_C; cl11414 983917006542 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 983917006543 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 983917006544 heme exporter protein CcmB; Region: ccmB; TIGR01190 983917006545 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 983917006546 Heme exporter protein D (CcmD); Region: CcmD; cl11475 983917006547 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 983917006548 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 983917006549 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 983917006550 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 983917006551 catalytic residues [active] 983917006552 central insert; other site 983917006553 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 983917006554 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 983917006555 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917006556 binding surface 983917006557 TPR motif; other site 983917006558 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917006559 Conserved TM helix; Region: TM_helix; pfam05552 983917006560 trehalose synthase; Region: treS_nterm; TIGR02456 983917006561 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 983917006562 active site 983917006563 catalytic site [active] 983917006564 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 983917006565 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 983917006566 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 983917006567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917006568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917006569 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 983917006570 putative effector binding pocket; other site 983917006571 dimerization interface [polypeptide binding]; other site 983917006572 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 983917006573 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 983917006574 putative substrate translocation pore; other site 983917006575 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 983917006576 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 983917006577 potential catalytic triad [active] 983917006578 conserved cys residue [active] 983917006579 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 983917006580 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 983917006581 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 983917006582 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 983917006583 4Fe-4S binding domain; Region: Fer4_5; pfam12801 983917006584 Iron permease FTR1 family; Region: FTR1; cl00475 983917006585 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 983917006586 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 983917006587 Fe2+ transport protein; Region: Iron_transport; pfam10634 983917006588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 983917006589 Family of unknown function (DUF490); Region: DUF490; pfam04357 983917006590 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 983917006591 Surface antigen; Region: Bac_surface_Ag; pfam01103 983917006592 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 983917006593 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983917006594 Predicted flavoprotein [General function prediction only]; Region: COG0431 983917006595 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 983917006596 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 983917006597 active site 983917006598 catalytic residues [active] 983917006599 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 983917006600 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 983917006601 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 983917006602 ATP binding site [chemical binding]; other site 983917006603 putative Mg++ binding site [ion binding]; other site 983917006604 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 983917006605 nucleotide binding region [chemical binding]; other site 983917006606 ATP-binding site [chemical binding]; other site 983917006607 Cupin domain; Region: Cupin_2; cl17218 983917006608 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 983917006609 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 983917006610 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 983917006611 catalytic site [active] 983917006612 active site 983917006613 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 983917006614 4-alpha-glucanotransferase; Provisional; Region: PRK14508 983917006615 phosphoglucomutase; Region: PLN02307 983917006616 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 983917006617 substrate binding site [chemical binding]; other site 983917006618 dimer interface [polypeptide binding]; other site 983917006619 active site 983917006620 metal binding site [ion binding]; metal-binding site 983917006621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 983917006622 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_2; cd03402 983917006623 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 983917006624 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 983917006625 Chromate transporter; Region: Chromate_transp; pfam02417 983917006626 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 983917006627 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 983917006628 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 983917006629 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 983917006630 Uncharacterized conserved protein [Function unknown]; Region: COG3791 983917006631 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 983917006632 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 983917006633 putative hydrophobic ligand binding site [chemical binding]; other site 983917006634 Isochorismatase family; Region: Isochorismatase; pfam00857 983917006635 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 983917006636 catalytic triad [active] 983917006637 conserved cis-peptide bond; other site 983917006638 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 983917006639 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 983917006640 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 983917006641 Protein of unknown function (DUF461); Region: DUF461; pfam04314 983917006642 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 983917006643 S-adenosylmethionine binding site [chemical binding]; other site 983917006644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917006645 metal binding site [ion binding]; metal-binding site 983917006646 active site 983917006647 I-site; other site 983917006648 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 983917006649 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917006650 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 983917006651 N-terminal plug; other site 983917006652 ligand-binding site [chemical binding]; other site 983917006653 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917006654 PAS domain; Region: PAS; smart00091 983917006655 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006656 dimer interface [polypeptide binding]; other site 983917006657 phosphorylation site [posttranslational modification] 983917006658 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006659 ATP binding site [chemical binding]; other site 983917006660 Mg2+ binding site [ion binding]; other site 983917006661 G-X-G motif; other site 983917006662 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006664 active site 983917006665 phosphorylation site [posttranslational modification] 983917006666 intermolecular recognition site; other site 983917006667 dimerization interface [polypeptide binding]; other site 983917006668 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 983917006669 putative binding surface; other site 983917006670 active site 983917006671 PAS domain S-box; Region: sensory_box; TIGR00229 983917006672 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006673 putative active site [active] 983917006674 heme pocket [chemical binding]; other site 983917006675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006676 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006677 dimer interface [polypeptide binding]; other site 983917006678 phosphorylation site [posttranslational modification] 983917006679 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006680 ATP binding site [chemical binding]; other site 983917006681 Mg2+ binding site [ion binding]; other site 983917006682 G-X-G motif; other site 983917006683 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006685 active site 983917006686 phosphorylation site [posttranslational modification] 983917006687 intermolecular recognition site; other site 983917006688 dimerization interface [polypeptide binding]; other site 983917006689 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 983917006690 domain interfaces; other site 983917006691 active site 983917006692 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 983917006693 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 983917006694 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 983917006695 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983917006696 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 983917006697 putative active site [active] 983917006698 putative metal binding site [ion binding]; other site 983917006699 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 983917006700 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 983917006701 NAD binding site [chemical binding]; other site 983917006702 catalytic Zn binding site [ion binding]; other site 983917006703 structural Zn binding site [ion binding]; other site 983917006704 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 983917006705 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983917006706 putative NAD(P) binding site [chemical binding]; other site 983917006707 active site 983917006708 DoxX-like family; Region: DoxX_3; pfam13781 983917006709 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 983917006710 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 983917006711 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 983917006712 non-specific DNA binding site [nucleotide binding]; other site 983917006713 salt bridge; other site 983917006714 sequence-specific DNA binding site [nucleotide binding]; other site 983917006715 2TM domain; Region: 2TM; pfam13239 983917006716 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 983917006717 Cytochrome P450; Region: p450; cl12078 983917006718 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917006719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006720 active site 983917006721 phosphorylation site [posttranslational modification] 983917006722 intermolecular recognition site; other site 983917006723 dimerization interface [polypeptide binding]; other site 983917006724 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006725 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006726 putative active site [active] 983917006727 heme pocket [chemical binding]; other site 983917006728 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006729 dimer interface [polypeptide binding]; other site 983917006730 phosphorylation site [posttranslational modification] 983917006731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006732 ATP binding site [chemical binding]; other site 983917006733 G-X-G motif; other site 983917006734 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006736 active site 983917006737 phosphorylation site [posttranslational modification] 983917006738 intermolecular recognition site; other site 983917006739 dimerization interface [polypeptide binding]; other site 983917006740 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006742 active site 983917006743 phosphorylation site [posttranslational modification] 983917006744 intermolecular recognition site; other site 983917006745 dimerization interface [polypeptide binding]; other site 983917006746 PAS domain S-box; Region: sensory_box; TIGR00229 983917006747 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 983917006748 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006749 dimer interface [polypeptide binding]; other site 983917006750 phosphorylation site [posttranslational modification] 983917006751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006752 ATP binding site [chemical binding]; other site 983917006753 Mg2+ binding site [ion binding]; other site 983917006754 G-X-G motif; other site 983917006755 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 983917006756 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 983917006757 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 983917006758 dimerization interface [polypeptide binding]; other site 983917006759 putative active cleft [active] 983917006760 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 983917006761 dimerization interface [polypeptide binding]; other site 983917006762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917006763 dimer interface [polypeptide binding]; other site 983917006764 putative CheW interface [polypeptide binding]; other site 983917006765 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917006766 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 983917006767 ligand binding site [chemical binding]; other site 983917006768 flexible hinge region; other site 983917006769 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 983917006770 putative switch regulator; other site 983917006771 non-specific DNA interactions [nucleotide binding]; other site 983917006772 DNA binding site [nucleotide binding] 983917006773 sequence specific DNA binding site [nucleotide binding]; other site 983917006774 putative cAMP binding site [chemical binding]; other site 983917006775 Nitrate and nitrite sensing; Region: NIT; pfam08376 983917006776 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917006777 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917006778 dimer interface [polypeptide binding]; other site 983917006779 putative CheW interface [polypeptide binding]; other site 983917006780 PAS domain S-box; Region: sensory_box; TIGR00229 983917006781 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006782 putative active site [active] 983917006783 heme pocket [chemical binding]; other site 983917006784 PAS fold; Region: PAS_4; pfam08448 983917006785 PAS domain S-box; Region: sensory_box; TIGR00229 983917006786 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006787 putative active site [active] 983917006788 heme pocket [chemical binding]; other site 983917006789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006790 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006791 dimer interface [polypeptide binding]; other site 983917006792 phosphorylation site [posttranslational modification] 983917006793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006794 ATP binding site [chemical binding]; other site 983917006795 Mg2+ binding site [ion binding]; other site 983917006796 G-X-G motif; other site 983917006797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006798 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006799 active site 983917006800 phosphorylation site [posttranslational modification] 983917006801 intermolecular recognition site; other site 983917006802 dimerization interface [polypeptide binding]; other site 983917006803 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006805 active site 983917006806 phosphorylation site [posttranslational modification] 983917006807 intermolecular recognition site; other site 983917006808 dimerization interface [polypeptide binding]; other site 983917006809 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 983917006810 putative active site [active] 983917006811 putative metal binding site [ion binding]; other site 983917006812 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917006813 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 983917006814 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 983917006815 Subunit I/III interface [polypeptide binding]; other site 983917006816 Flagellar L-ring protein; Region: FlgH; pfam02107 983917006817 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 983917006818 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917006819 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 983917006820 catalytic site [active] 983917006821 CsbD-like; Region: CsbD; pfam05532 983917006822 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917006823 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 983917006824 dimerization interface [polypeptide binding]; other site 983917006825 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917006826 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917006827 dimer interface [polypeptide binding]; other site 983917006828 putative CheW interface [polypeptide binding]; other site 983917006829 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 983917006830 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 983917006831 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 983917006832 active site 983917006833 dimer interface [polypeptide binding]; other site 983917006834 effector binding site; other site 983917006835 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 983917006836 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 983917006837 AAA domain; Region: AAA_30; pfam13604 983917006838 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 983917006839 AAA domain; Region: AAA_12; pfam13087 983917006840 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 983917006841 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 983917006842 putative NAD(P) binding site [chemical binding]; other site 983917006843 putative substrate binding site [chemical binding]; other site 983917006844 catalytic Zn binding site [ion binding]; other site 983917006845 structural Zn binding site [ion binding]; other site 983917006846 dimer interface [polypeptide binding]; other site 983917006847 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 983917006848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917006849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006850 active site 983917006851 phosphorylation site [posttranslational modification] 983917006852 intermolecular recognition site; other site 983917006853 dimerization interface [polypeptide binding]; other site 983917006854 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 983917006855 DNA binding site [nucleotide binding] 983917006856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006857 HAMP domain; Region: HAMP; pfam00672 983917006858 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006859 dimer interface [polypeptide binding]; other site 983917006860 phosphorylation site [posttranslational modification] 983917006861 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006862 ATP binding site [chemical binding]; other site 983917006863 Mg2+ binding site [ion binding]; other site 983917006864 G-X-G motif; other site 983917006865 putative metal dependent hydrolase; Provisional; Region: PRK11598 983917006866 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 983917006867 Sulfatase; Region: Sulfatase; pfam00884 983917006868 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 983917006869 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 983917006870 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 983917006871 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 983917006872 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917006873 active site 983917006874 nucleotide binding site [chemical binding]; other site 983917006875 HIGH motif; other site 983917006876 KMSKS motif; other site 983917006877 citrate lyase subunit gamma; Provisional; Region: PRK13253 983917006878 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 983917006879 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 983917006880 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 983917006881 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 983917006882 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 983917006883 PAS domain; Region: PAS; smart00091 983917006884 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006885 ATP binding site [chemical binding]; other site 983917006886 G-X-G motif; other site 983917006887 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 983917006888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006889 active site 983917006890 phosphorylation site [posttranslational modification] 983917006891 intermolecular recognition site; other site 983917006892 dimerization interface [polypeptide binding]; other site 983917006893 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 983917006894 Serine hydrolase; Region: Ser_hydrolase; pfam06821 983917006895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917006896 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 983917006897 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 983917006898 catalytic loop [active] 983917006899 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 983917006900 iron binding site [ion binding]; other site 983917006901 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 983917006902 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 983917006903 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 983917006904 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 983917006905 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 983917006906 Uncharacterized conserved protein [Function unknown]; Region: COG3791 983917006907 PAS fold; Region: PAS_3; pfam08447 983917006908 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006909 heme pocket [chemical binding]; other site 983917006910 putative active site [active] 983917006911 PAS domain; Region: PAS_9; pfam13426 983917006912 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006913 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917006914 putative active site [active] 983917006915 heme pocket [chemical binding]; other site 983917006916 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006917 dimer interface [polypeptide binding]; other site 983917006918 phosphorylation site [posttranslational modification] 983917006919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006920 ATP binding site [chemical binding]; other site 983917006921 Mg2+ binding site [ion binding]; other site 983917006922 G-X-G motif; other site 983917006923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006924 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006925 active site 983917006926 phosphorylation site [posttranslational modification] 983917006927 intermolecular recognition site; other site 983917006928 dimerization interface [polypeptide binding]; other site 983917006929 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006931 active site 983917006932 phosphorylation site [posttranslational modification] 983917006933 intermolecular recognition site; other site 983917006934 dimerization interface [polypeptide binding]; other site 983917006935 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 983917006936 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 983917006937 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 983917006938 Walker A motif; other site 983917006939 ATP binding site [chemical binding]; other site 983917006940 Walker B motif; other site 983917006941 KaiC; Region: KaiC; pfam06745 983917006942 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 983917006943 Walker A motif; other site 983917006944 ATP binding site [chemical binding]; other site 983917006945 Walker B motif; other site 983917006946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917006947 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006948 ATP binding site [chemical binding]; other site 983917006949 Mg2+ binding site [ion binding]; other site 983917006950 G-X-G motif; other site 983917006951 Response regulator receiver domain; Region: Response_reg; pfam00072 983917006952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006953 active site 983917006954 phosphorylation site [posttranslational modification] 983917006955 intermolecular recognition site; other site 983917006956 dimerization interface [polypeptide binding]; other site 983917006957 von Willebrand factor type A domain; Region: VWA_2; pfam13519 983917006958 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 983917006959 metal ion-dependent adhesion site (MIDAS); other site 983917006960 Protein of unknown function DUF58; Region: DUF58; pfam01882 983917006961 MoxR-like ATPases [General function prediction only]; Region: COG0714 983917006962 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 983917006963 Walker A motif; other site 983917006964 ATP binding site [chemical binding]; other site 983917006965 Walker B motif; other site 983917006966 arginine finger; other site 983917006967 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917006968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917006969 active site 983917006970 phosphorylation site [posttranslational modification] 983917006971 intermolecular recognition site; other site 983917006972 dimerization interface [polypeptide binding]; other site 983917006973 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 983917006974 DNA binding residues [nucleotide binding] 983917006975 dimerization interface [polypeptide binding]; other site 983917006976 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 983917006977 dimerization interface [polypeptide binding]; other site 983917006978 Histidine kinase; Region: HisKA_3; pfam07730 983917006979 Uncharacterized conserved protein [Function unknown]; Region: COG3270 983917006980 PAS fold; Region: PAS_4; pfam08448 983917006981 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006982 putative active site [active] 983917006983 heme pocket [chemical binding]; other site 983917006984 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006985 PAS domain; Region: PAS_9; pfam13426 983917006986 putative active site [active] 983917006987 heme pocket [chemical binding]; other site 983917006988 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917006989 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917006990 putative active site [active] 983917006991 heme pocket [chemical binding]; other site 983917006992 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917006993 dimer interface [polypeptide binding]; other site 983917006994 phosphorylation site [posttranslational modification] 983917006995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917006996 ATP binding site [chemical binding]; other site 983917006997 Mg2+ binding site [ion binding]; other site 983917006998 G-X-G motif; other site 983917006999 Response regulator receiver domain; Region: Response_reg; pfam00072 983917007000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917007001 active site 983917007002 phosphorylation site [posttranslational modification] 983917007003 intermolecular recognition site; other site 983917007004 dimerization interface [polypeptide binding]; other site 983917007005 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917007006 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 983917007007 N-terminal plug; other site 983917007008 ligand-binding site [chemical binding]; other site 983917007009 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 983917007010 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917007011 Ferredoxin [Energy production and conversion]; Region: COG1146 983917007012 4Fe-4S binding domain; Region: Fer4; cl02805 983917007013 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 983917007014 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 983917007015 active site 983917007016 SAM binding site [chemical binding]; other site 983917007017 homodimer interface [polypeptide binding]; other site 983917007018 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 983917007019 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 983917007020 Active Sites [active] 983917007021 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 983917007022 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 983917007023 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 983917007024 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 983917007025 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 983917007026 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 983917007027 nucleophile elbow; other site 983917007028 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 983917007029 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 983917007030 non-specific DNA binding site [nucleotide binding]; other site 983917007031 salt bridge; other site 983917007032 sequence-specific DNA binding site [nucleotide binding]; other site 983917007033 Cupin domain; Region: Cupin_2; pfam07883 983917007034 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 983917007035 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 983917007036 Phasin protein; Region: Phasin_2; pfam09361 983917007037 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 983917007038 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 983917007039 putative active site [active] 983917007040 Zn binding site [ion binding]; other site 983917007041 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 983917007042 active site 983917007043 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 983917007044 putative FMN binding site [chemical binding]; other site 983917007045 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 983917007046 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 983917007047 dimerization interface [polypeptide binding]; other site 983917007048 ligand binding site [chemical binding]; other site 983917007049 NADP binding site [chemical binding]; other site 983917007050 catalytic site [active] 983917007051 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 983917007052 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 983917007053 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 983917007054 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 983917007055 active site 983917007056 homotetramer interface [polypeptide binding]; other site 983917007057 RmuC family; Region: RmuC; pfam02646 983917007058 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 983917007059 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917007060 putative substrate translocation pore; other site 983917007061 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 983917007062 catalytic residues [active] 983917007063 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 983917007064 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 983917007065 active site 983917007066 Zn binding site [ion binding]; other site 983917007067 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 983917007068 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 983917007069 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 983917007070 homodimer interface [polypeptide binding]; other site 983917007071 NADP binding site [chemical binding]; other site 983917007072 substrate binding site [chemical binding]; other site 983917007073 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 983917007074 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917007075 active site 983917007076 phosphorylation site [posttranslational modification] 983917007077 intermolecular recognition site; other site 983917007078 dimerization interface [polypeptide binding]; other site 983917007079 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 983917007080 DNA binding residues [nucleotide binding] 983917007081 dimerization interface [polypeptide binding]; other site 983917007082 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 983917007083 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917007084 putative active site [active] 983917007085 heme pocket [chemical binding]; other site 983917007086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917007087 dimer interface [polypeptide binding]; other site 983917007088 phosphorylation site [posttranslational modification] 983917007089 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917007090 ATP binding site [chemical binding]; other site 983917007091 Mg2+ binding site [ion binding]; other site 983917007092 G-X-G motif; other site 983917007093 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 983917007094 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 983917007095 dimer interface [polypeptide binding]; other site 983917007096 TPP-binding site [chemical binding]; other site 983917007097 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 983917007098 E3 interaction surface; other site 983917007099 lipoyl attachment site [posttranslational modification]; other site 983917007100 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 983917007101 E3 interaction surface; other site 983917007102 lipoyl attachment site [posttranslational modification]; other site 983917007103 e3 binding domain; Region: E3_binding; pfam02817 983917007104 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 983917007105 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 983917007106 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 983917007107 E3 interaction surface; other site 983917007108 lipoyl attachment site [posttranslational modification]; other site 983917007109 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 983917007110 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917007111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 983917007112 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 983917007113 High potential iron-sulfur protein; Region: HIPIP; pfam01355 983917007114 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917007115 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 983917007116 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_4; cd04511 983917007117 nudix motif; other site 983917007118 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 983917007119 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 983917007120 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 983917007121 maleylacetoacetate isomerase; Region: maiA; TIGR01262 983917007122 C-terminal domain interface [polypeptide binding]; other site 983917007123 GSH binding site (G-site) [chemical binding]; other site 983917007124 putative dimer interface [polypeptide binding]; other site 983917007125 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 983917007126 dimer interface [polypeptide binding]; other site 983917007127 N-terminal domain interface [polypeptide binding]; other site 983917007128 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 983917007129 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 983917007130 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 983917007131 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 983917007132 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 983917007133 putative acyltransferase; Provisional; Region: PRK05790 983917007134 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 983917007135 dimer interface [polypeptide binding]; other site 983917007136 active site 983917007137 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 983917007138 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 983917007139 NAD(P) binding site [chemical binding]; other site 983917007140 homotetramer interface [polypeptide binding]; other site 983917007141 homodimer interface [polypeptide binding]; other site 983917007142 active site 983917007143 Uncharacterized conserved protein [Function unknown]; Region: COG1284 983917007144 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 983917007145 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 983917007146 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 983917007147 active site residue [active] 983917007148 PII uridylyl-transferase; Provisional; Region: PRK03059 983917007149 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 983917007150 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 983917007151 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917007152 Zn2+ binding site [ion binding]; other site 983917007153 Mg2+ binding site [ion binding]; other site 983917007154 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 983917007155 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 983917007156 methionine aminopeptidase; Provisional; Region: PRK08671 983917007157 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 983917007158 active site 983917007159 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 983917007160 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 983917007161 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 983917007162 dimerization interface [polypeptide binding]; other site 983917007163 ATP binding site [chemical binding]; other site 983917007164 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 983917007165 dimerization interface [polypeptide binding]; other site 983917007166 ATP binding site [chemical binding]; other site 983917007167 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 983917007168 putative active site [active] 983917007169 catalytic triad [active] 983917007170 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 983917007171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917007172 Walker A/P-loop; other site 983917007173 ATP binding site [chemical binding]; other site 983917007174 Q-loop/lid; other site 983917007175 ABC transporter signature motif; other site 983917007176 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007177 Walker B; other site 983917007178 D-loop; other site 983917007179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917007180 Walker A/P-loop; other site 983917007181 ATP binding site [chemical binding]; other site 983917007182 Q-loop/lid; other site 983917007183 ABC transporter signature motif; other site 983917007184 Walker B; other site 983917007185 D-loop; other site 983917007186 H-loop/switch region; other site 983917007187 Tim44-like domain; Region: Tim44; cl09208 983917007188 Protein of unknown function (DUF456); Region: DUF456; pfam04306 983917007189 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 983917007190 Uncharacterized conserved protein [Function unknown]; Region: COG1434 983917007191 putative active site [active] 983917007192 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 983917007193 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 983917007194 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 983917007195 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 983917007196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917007197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917007198 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 983917007199 dimerization interface [polypeptide binding]; other site 983917007200 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 983917007201 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 983917007202 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 983917007203 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983917007204 FAD binding site [chemical binding]; other site 983917007205 substrate binding pocket [chemical binding]; other site 983917007206 catalytic base [active] 983917007207 methionine sulfoxide reductase A; Provisional; Region: PRK14054 983917007208 Pathogenicity locus; Region: Cdd1; pfam11731 983917007209 LexA repressor; Validated; Region: PRK00215 983917007210 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 983917007211 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 983917007212 Catalytic site [active] 983917007213 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 983917007214 active site 983917007215 homodimer interface [polypeptide binding]; other site 983917007216 homotetramer interface [polypeptide binding]; other site 983917007217 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 983917007218 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 983917007219 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 983917007220 putative Zn2+ binding site [ion binding]; other site 983917007221 putative DNA binding site [nucleotide binding]; other site 983917007222 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 983917007223 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007224 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007225 ABC transporter; Region: ABC_tran_2; pfam12848 983917007226 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007227 HemK family putative methylases; Region: hemK_fam; TIGR00536 983917007228 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 983917007229 S-adenosylmethionine binding site [chemical binding]; other site 983917007230 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 983917007231 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 983917007232 metal binding site [ion binding]; metal-binding site 983917007233 dimer interface [polypeptide binding]; other site 983917007234 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 983917007235 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 983917007236 Walker A motif; other site 983917007237 ATP binding site [chemical binding]; other site 983917007238 Walker B motif; other site 983917007239 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 983917007240 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 983917007241 active site 983917007242 substrate binding site [chemical binding]; other site 983917007243 trimer interface [polypeptide binding]; other site 983917007244 CoA binding site [chemical binding]; other site 983917007245 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 983917007246 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 983917007247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917007248 homodimer interface [polypeptide binding]; other site 983917007249 catalytic residue [active] 983917007250 beta-ketothiolase; Provisional; Region: PRK09051 983917007251 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 983917007252 dimer interface [polypeptide binding]; other site 983917007253 active site 983917007254 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 983917007255 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 983917007256 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 983917007257 AAA domain; Region: AAA_23; pfam13476 983917007258 Walker A/P-loop; other site 983917007259 ATP binding site [chemical binding]; other site 983917007260 Q-loop/lid; other site 983917007261 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 983917007262 Q-loop/lid; other site 983917007263 ABC transporter signature motif; other site 983917007264 Walker B; other site 983917007265 D-loop; other site 983917007266 H-loop/switch region; other site 983917007267 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 983917007268 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 983917007269 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 983917007270 nucleotide binding pocket [chemical binding]; other site 983917007271 K-X-D-G motif; other site 983917007272 catalytic site [active] 983917007273 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 983917007274 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 983917007275 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 983917007276 Dimer interface [polypeptide binding]; other site 983917007277 BRCT sequence motif; other site 983917007278 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 983917007279 active site 983917007280 catalytic residues [active] 983917007281 metal binding site [ion binding]; metal-binding site 983917007282 FecR protein; Region: FecR; pfam04773 983917007283 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 983917007284 active site 983917007285 catalytic triad [active] 983917007286 oxyanion hole [active] 983917007287 switch loop; other site 983917007288 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 983917007289 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917007290 Walker A/P-loop; other site 983917007291 ATP binding site [chemical binding]; other site 983917007292 Q-loop/lid; other site 983917007293 ABC transporter signature motif; other site 983917007294 Walker B; other site 983917007295 D-loop; other site 983917007296 H-loop/switch region; other site 983917007297 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 983917007298 active site 983917007299 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 983917007300 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 983917007301 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 983917007302 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 983917007303 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 983917007304 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 983917007305 Walker A/P-loop; other site 983917007306 ATP binding site [chemical binding]; other site 983917007307 Q-loop/lid; other site 983917007308 ABC transporter signature motif; other site 983917007309 Walker B; other site 983917007310 D-loop; other site 983917007311 H-loop/switch region; other site 983917007312 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917007313 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917007314 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917007315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917007316 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 983917007317 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007318 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007319 ABC transporter; Region: ABC_tran_2; pfam12848 983917007320 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 983917007321 helicase 45; Provisional; Region: PTZ00424 983917007322 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 983917007323 ATP binding site [chemical binding]; other site 983917007324 Mg++ binding site [ion binding]; other site 983917007325 motif III; other site 983917007326 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 983917007327 nucleotide binding region [chemical binding]; other site 983917007328 ATP-binding site [chemical binding]; other site 983917007329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917007330 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 983917007331 DNA binding site [nucleotide binding] 983917007332 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 983917007333 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 983917007334 BolA-like protein; Region: BolA; pfam01722 983917007335 intracellular septation protein A; Reviewed; Region: PRK00259 983917007336 methionine sulfoxide reductase B; Provisional; Region: PRK00222 983917007337 SelR domain; Region: SelR; pfam01641 983917007338 Uncharacterized conserved protein [Function unknown]; Region: COG0397 983917007339 hypothetical protein; Validated; Region: PRK00029 983917007340 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 983917007341 TM-ABC transporter signature motif; other site 983917007342 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 983917007343 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 983917007344 TM-ABC transporter signature motif; other site 983917007345 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 983917007346 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 983917007347 Walker A/P-loop; other site 983917007348 ATP binding site [chemical binding]; other site 983917007349 Q-loop/lid; other site 983917007350 ABC transporter signature motif; other site 983917007351 Walker B; other site 983917007352 D-loop; other site 983917007353 H-loop/switch region; other site 983917007354 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 983917007355 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 983917007356 Walker A/P-loop; other site 983917007357 ATP binding site [chemical binding]; other site 983917007358 Q-loop/lid; other site 983917007359 ABC transporter signature motif; other site 983917007360 Walker B; other site 983917007361 D-loop; other site 983917007362 H-loop/switch region; other site 983917007363 hypothetical protein; Provisional; Region: PRK09126 983917007364 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 983917007365 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 983917007366 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 983917007367 substrate binding site [chemical binding]; other site 983917007368 oxyanion hole (OAH) forming residues; other site 983917007369 trimer interface [polypeptide binding]; other site 983917007370 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 983917007371 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 983917007372 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 983917007373 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 983917007374 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 983917007375 dimer interface [polypeptide binding]; other site 983917007376 active site 983917007377 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983917007378 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917007379 active site 983917007380 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 983917007381 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 983917007382 classical (c) SDRs; Region: SDR_c; cd05233 983917007383 NAD(P) binding site [chemical binding]; other site 983917007384 active site 983917007385 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 983917007386 Prostaglandin dehydrogenases; Region: PGDH; cd05288 983917007387 NAD(P) binding site [chemical binding]; other site 983917007388 substrate binding site [chemical binding]; other site 983917007389 dimer interface [polypeptide binding]; other site 983917007390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917007391 hypothetical protein; Provisional; Region: PRK06194 983917007392 classical (c) SDRs; Region: SDR_c; cd05233 983917007393 NAD(P) binding site [chemical binding]; other site 983917007394 active site 983917007395 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 983917007396 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 983917007397 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 983917007398 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 983917007399 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 983917007400 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 983917007401 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 983917007402 RNA binding site [nucleotide binding]; other site 983917007403 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917007404 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 983917007405 Ligand binding site; other site 983917007406 DXD motif; other site 983917007407 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 983917007408 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 983917007409 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 983917007410 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 983917007411 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 983917007412 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 983917007413 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 983917007414 active site 983917007415 dimer interface [polypeptide binding]; other site 983917007416 motif 1; other site 983917007417 motif 2; other site 983917007418 motif 3; other site 983917007419 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 983917007420 anticodon binding site; other site 983917007421 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 983917007422 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 983917007423 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 983917007424 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 983917007425 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 983917007426 23S rRNA binding site [nucleotide binding]; other site 983917007427 L21 binding site [polypeptide binding]; other site 983917007428 L13 binding site [polypeptide binding]; other site 983917007429 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 983917007430 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 983917007431 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 983917007432 dimer interface [polypeptide binding]; other site 983917007433 motif 1; other site 983917007434 active site 983917007435 motif 2; other site 983917007436 motif 3; other site 983917007437 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 983917007438 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 983917007439 putative tRNA-binding site [nucleotide binding]; other site 983917007440 B3/4 domain; Region: B3_4; pfam03483 983917007441 tRNA synthetase B5 domain; Region: B5; smart00874 983917007442 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 983917007443 dimer interface [polypeptide binding]; other site 983917007444 motif 1; other site 983917007445 motif 3; other site 983917007446 motif 2; other site 983917007447 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 983917007448 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 983917007449 IHF - DNA interface [nucleotide binding]; other site 983917007450 IHF dimer interface [polypeptide binding]; other site 983917007451 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 983917007452 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 983917007453 DNA binding residues [nucleotide binding] 983917007454 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 983917007455 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 983917007456 Autoinducer binding domain; Region: Autoind_bind; pfam03472 983917007457 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 983917007458 DNA binding residues [nucleotide binding] 983917007459 dimerization interface [polypeptide binding]; other site 983917007460 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 983917007461 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 983917007462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917007463 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917007464 dimer interface [polypeptide binding]; other site 983917007465 phosphorylation site [posttranslational modification] 983917007466 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917007467 ATP binding site [chemical binding]; other site 983917007468 Mg2+ binding site [ion binding]; other site 983917007469 G-X-G motif; other site 983917007470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917007471 Response regulator receiver domain; Region: Response_reg; pfam00072 983917007472 active site 983917007473 phosphorylation site [posttranslational modification] 983917007474 intermolecular recognition site; other site 983917007475 dimerization interface [polypeptide binding]; other site 983917007476 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 983917007477 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 983917007478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917007479 active site 983917007480 phosphorylation site [posttranslational modification] 983917007481 intermolecular recognition site; other site 983917007482 dimerization interface [polypeptide binding]; other site 983917007483 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 983917007484 Walker A motif; other site 983917007485 ATP binding site [chemical binding]; other site 983917007486 Walker B motif; other site 983917007487 arginine finger; other site 983917007488 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917007489 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983917007490 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 983917007491 NAD binding site [chemical binding]; other site 983917007492 putative substrate binding site 2 [chemical binding]; other site 983917007493 putative substrate binding site 1 [chemical binding]; other site 983917007494 active site 983917007495 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 983917007496 putative active site [active] 983917007497 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 983917007498 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 983917007499 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 983917007500 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 983917007501 active site 983917007502 DNA binding site [nucleotide binding] 983917007503 Int/Topo IB signature motif; other site 983917007504 catalytic residues [active] 983917007505 PAS fold; Region: PAS_4; pfam08448 983917007506 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917007507 putative active site [active] 983917007508 heme pocket [chemical binding]; other site 983917007509 PAS domain S-box; Region: sensory_box; TIGR00229 983917007510 PAS domain; Region: PAS_8; pfam13188 983917007511 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917007512 dimer interface [polypeptide binding]; other site 983917007513 phosphorylation site [posttranslational modification] 983917007514 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917007515 ATP binding site [chemical binding]; other site 983917007516 Mg2+ binding site [ion binding]; other site 983917007517 G-X-G motif; other site 983917007518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 983917007519 active site 983917007520 phosphorylation site [posttranslational modification] 983917007521 intermolecular recognition site; other site 983917007522 dimerization interface [polypeptide binding]; other site 983917007523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917007524 Response regulator receiver domain; Region: Response_reg; pfam00072 983917007525 active site 983917007526 phosphorylation site [posttranslational modification] 983917007527 intermolecular recognition site; other site 983917007528 dimerization interface [polypeptide binding]; other site 983917007529 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 983917007530 putative binding surface; other site 983917007531 active site 983917007532 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917007533 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 983917007534 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 983917007535 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 983917007536 putative active site [active] 983917007537 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917007538 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 983917007539 active site 983917007540 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 983917007541 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 983917007542 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 983917007543 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 983917007544 putative active site [active] 983917007545 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 983917007546 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 983917007547 active site 983917007548 motif I; other site 983917007549 motif II; other site 983917007550 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 983917007551 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 983917007552 putative ADP-binding pocket [chemical binding]; other site 983917007553 Isochorismatase family; Region: Isochorismatase; pfam00857 983917007554 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 983917007555 catalytic triad [active] 983917007556 conserved cis-peptide bond; other site 983917007557 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 983917007558 classical (c) SDRs; Region: SDR_c; cd05233 983917007559 NAD(P) binding site [chemical binding]; other site 983917007560 active site 983917007561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917007562 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 983917007563 PAP2 superfamily; Region: PAP2; pfam01569 983917007564 active site 983917007565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 983917007566 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 983917007567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 983917007568 active site 983917007569 phosphorylation site [posttranslational modification] 983917007570 intermolecular recognition site; other site 983917007571 dimerization interface [polypeptide binding]; other site 983917007572 short chain dehydrogenase; Provisional; Region: PRK06701 983917007573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917007574 NAD(P) binding site [chemical binding]; other site 983917007575 active site 983917007576 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 983917007577 FMN binding site [chemical binding]; other site 983917007578 substrate binding site [chemical binding]; other site 983917007579 putative catalytic residue [active] 983917007580 Hemerythrin-like domain; Region: Hr-like; cd12108 983917007581 Predicted membrane protein [Function unknown]; Region: COG2261 983917007582 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 983917007583 Predicted membrane protein [Function unknown]; Region: COG2323 983917007584 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 983917007585 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917007586 dimer interface [polypeptide binding]; other site 983917007587 phosphorylation site [posttranslational modification] 983917007588 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 983917007589 G-X-G motif; other site 983917007590 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917007591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917007592 active site 983917007593 phosphorylation site [posttranslational modification] 983917007594 intermolecular recognition site; other site 983917007595 dimerization interface [polypeptide binding]; other site 983917007596 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 983917007597 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917007598 putative active site [active] 983917007599 catalytic site [active] 983917007600 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917007601 putative active site [active] 983917007602 catalytic site [active] 983917007603 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 983917007604 BON domain; Region: BON; pfam04972 983917007605 Hemerythrin-like domain; Region: Hr-like; cd12108 983917007606 Hemerythrin-like domain; Region: Hr-like; cd12108 983917007607 Fe binding site [ion binding]; other site 983917007608 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 983917007609 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 983917007610 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 983917007611 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 983917007612 CAAX protease self-immunity; Region: Abi; pfam02517 983917007613 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917007614 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 983917007615 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 983917007616 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 983917007617 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917007618 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 983917007619 N-terminal plug; other site 983917007620 ligand-binding site [chemical binding]; other site 983917007621 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 983917007622 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 983917007623 active site 983917007624 non-prolyl cis peptide bond; other site 983917007625 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 983917007626 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 983917007627 FeS/SAM binding site; other site 983917007628 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 983917007629 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 983917007630 Sulfatase; Region: Sulfatase; pfam00884 983917007631 Sulfatase; Region: Sulfatase; cl17466 983917007632 Sulphur transport; Region: Sulf_transp; pfam04143 983917007633 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 983917007634 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 983917007635 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 983917007636 PYR/PP interface [polypeptide binding]; other site 983917007637 dimer interface [polypeptide binding]; other site 983917007638 TPP binding site [chemical binding]; other site 983917007639 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 983917007640 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 983917007641 TPP-binding site [chemical binding]; other site 983917007642 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 983917007643 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 983917007644 inhibitor-cofactor binding pocket; inhibition site 983917007645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917007646 catalytic residue [active] 983917007647 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 983917007648 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 983917007649 substrate binding pocket [chemical binding]; other site 983917007650 membrane-bound complex binding site; other site 983917007651 hinge residues; other site 983917007652 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 983917007653 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 983917007654 Walker A/P-loop; other site 983917007655 ATP binding site [chemical binding]; other site 983917007656 Q-loop/lid; other site 983917007657 ABC transporter signature motif; other site 983917007658 Walker B; other site 983917007659 D-loop; other site 983917007660 H-loop/switch region; other site 983917007661 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 983917007662 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 983917007663 dimer interface [polypeptide binding]; other site 983917007664 conserved gate region; other site 983917007665 ABC-ATPase subunit interface; other site 983917007666 choline dehydrogenase; Validated; Region: PRK02106 983917007667 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 983917007668 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 983917007669 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 983917007670 substrate binding pocket [chemical binding]; other site 983917007671 membrane-bound complex binding site; other site 983917007672 hinge residues; other site 983917007673 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 983917007674 Serine hydrolase; Region: Ser_hydrolase; pfam06821 983917007675 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 983917007676 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 983917007677 substrate binding pocket [chemical binding]; other site 983917007678 membrane-bound complex binding site; other site 983917007679 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 983917007680 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 983917007681 active site 983917007682 dimer interface [polypeptide binding]; other site 983917007683 non-prolyl cis peptide bond; other site 983917007684 insertion regions; other site 983917007685 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 983917007686 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 983917007687 putative PBP binding loops; other site 983917007688 dimer interface [polypeptide binding]; other site 983917007689 ABC-ATPase subunit interface; other site 983917007690 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 983917007691 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 983917007692 Walker A/P-loop; other site 983917007693 ATP binding site [chemical binding]; other site 983917007694 Q-loop/lid; other site 983917007695 ABC transporter signature motif; other site 983917007696 Walker B; other site 983917007697 D-loop; other site 983917007698 H-loop/switch region; other site 983917007699 nitrogenase iron protein; Region: nifH; TIGR01287 983917007700 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 983917007701 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 983917007702 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 983917007703 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 983917007704 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 983917007705 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917007706 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 983917007707 substrate binding pocket [chemical binding]; other site 983917007708 membrane-bound complex binding site; other site 983917007709 hinge residues; other site 983917007710 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 983917007711 dimer interface [polypeptide binding]; other site 983917007712 conserved gate region; other site 983917007713 putative PBP binding loops; other site 983917007714 ABC-ATPase subunit interface; other site 983917007715 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 983917007716 dimer interface [polypeptide binding]; other site 983917007717 conserved gate region; other site 983917007718 putative PBP binding loops; other site 983917007719 ABC-ATPase subunit interface; other site 983917007720 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 983917007721 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 983917007722 Walker A/P-loop; other site 983917007723 ATP binding site [chemical binding]; other site 983917007724 Q-loop/lid; other site 983917007725 ABC transporter signature motif; other site 983917007726 Walker B; other site 983917007727 D-loop; other site 983917007728 H-loop/switch region; other site 983917007729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917007730 Coenzyme A binding pocket [chemical binding]; other site 983917007731 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 983917007732 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 983917007733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917007734 homodimer interface [polypeptide binding]; other site 983917007735 catalytic residue [active] 983917007736 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 983917007737 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 983917007738 N-terminal domain interface [polypeptide binding]; other site 983917007739 dimer interface [polypeptide binding]; other site 983917007740 substrate binding pocket (H-site) [chemical binding]; other site 983917007741 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917007742 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 983917007743 N-terminal plug; other site 983917007744 ligand-binding site [chemical binding]; other site 983917007745 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 983917007746 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917007747 putative substrate translocation pore; other site 983917007748 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917007749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917007750 putative transposase 983917007751 putative transposase 983917007752 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 983917007753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917007754 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 983917007755 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917007756 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 983917007757 Transposase domain (DUF772); Region: DUF772; pfam05598 983917007758 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 983917007759 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 983917007760 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 983917007761 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 983917007762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 983917007763 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 983917007764 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 983917007765 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917007766 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 983917007767 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 983917007768 Clp amino terminal domain; Region: Clp_N; pfam02861 983917007769 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 983917007770 Walker A motif; other site 983917007771 ATP binding site [chemical binding]; other site 983917007772 Walker B motif; other site 983917007773 arginine finger; other site 983917007774 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 983917007775 Walker A motif; other site 983917007776 ATP binding site [chemical binding]; other site 983917007777 Walker B motif; other site 983917007778 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 983917007779 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 983917007780 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 983917007781 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 983917007782 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 983917007783 Protein of unknown function (DUF796); Region: DUF796; pfam05638 983917007784 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 983917007785 Protein of unknown function (DUF877); Region: DUF877; pfam05943 983917007786 Protein of unknown function (DUF770); Region: DUF770; cl01402 983917007787 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 983917007788 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 983917007789 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 983917007790 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 983917007791 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 983917007792 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 983917007793 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 983917007794 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917007795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 983917007796 VRR-NUC domain; Region: VRR_NUC; cl17748 983917007797 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 983917007798 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 983917007799 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 983917007800 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917007801 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917007802 ligand binding site [chemical binding]; other site 983917007803 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 983917007804 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 983917007805 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 983917007806 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 983917007807 PAAR motif; Region: PAAR_motif; pfam05488 983917007808 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 983917007809 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 983917007810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 983917007811 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 983917007812 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 983917007813 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917007814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 983917007815 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 983917007816 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 983917007817 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 983917007818 active site 983917007819 DNA binding site [nucleotide binding] 983917007820 Int/Topo IB signature motif; other site 983917007821 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 983917007822 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 983917007823 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983917007824 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 983917007825 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 983917007826 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983917007827 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 983917007828 active site 983917007829 PilZ domain; Region: PilZ; cl01260 983917007830 DNA polymerase III subunit delta'; Validated; Region: PRK06964 983917007831 DNA polymerase III subunit delta'; Validated; Region: PRK08485 983917007832 thymidylate kinase; Validated; Region: tmk; PRK00698 983917007833 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 983917007834 TMP-binding site; other site 983917007835 ATP-binding site [chemical binding]; other site 983917007836 YceG-like family; Region: YceG; pfam02618 983917007837 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 983917007838 dimerization interface [polypeptide binding]; other site 983917007839 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 983917007840 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 983917007841 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 983917007842 active site 983917007843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917007844 Coenzyme A binding pocket [chemical binding]; other site 983917007845 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 983917007846 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 983917007847 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 983917007848 putative active site [active] 983917007849 metal binding site [ion binding]; metal-binding site 983917007850 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 983917007851 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 983917007852 NAD(P) binding site [chemical binding]; other site 983917007853 LDH/MDH dimer interface [polypeptide binding]; other site 983917007854 substrate binding site [chemical binding]; other site 983917007855 isocitrate lyase; Provisional; Region: PRK15063 983917007856 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 983917007857 tetramer interface [polypeptide binding]; other site 983917007858 active site 983917007859 Mg2+/Mn2+ binding site [ion binding]; other site 983917007860 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 983917007861 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 983917007862 catalytic triad [active] 983917007863 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 983917007864 agmatinase; Region: agmatinase; TIGR01230 983917007865 oligomer interface [polypeptide binding]; other site 983917007866 putative active site [active] 983917007867 Mn binding site [ion binding]; other site 983917007868 Hemerythrin-like domain; Region: Hr-like; cd12108 983917007869 Fe binding site [ion binding]; other site 983917007870 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917007871 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 983917007872 putative DNA binding site [nucleotide binding]; other site 983917007873 putative Zn2+ binding site [ion binding]; other site 983917007874 AsnC family; Region: AsnC_trans_reg; pfam01037 983917007875 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 983917007876 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 983917007877 inhibitor-cofactor binding pocket; inhibition site 983917007878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917007879 catalytic residue [active] 983917007880 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 983917007881 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 983917007882 Peptidase C26; Region: Peptidase_C26; pfam07722 983917007883 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 983917007884 catalytic triad [active] 983917007885 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 983917007886 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 983917007887 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 983917007888 putative aminotransferase; Validated; Region: PRK07480 983917007889 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 983917007890 inhibitor-cofactor binding pocket; inhibition site 983917007891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917007892 catalytic residue [active] 983917007893 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 983917007894 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917007895 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 983917007896 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917007897 Walker A/P-loop; other site 983917007898 ATP binding site [chemical binding]; other site 983917007899 Q-loop/lid; other site 983917007900 ABC transporter signature motif; other site 983917007901 Walker B; other site 983917007902 D-loop; other site 983917007903 H-loop/switch region; other site 983917007904 TOBE domain; Region: TOBE_2; pfam08402 983917007905 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 983917007906 dimer interface [polypeptide binding]; other site 983917007907 conserved gate region; other site 983917007908 putative PBP binding loops; other site 983917007909 ABC-ATPase subunit interface; other site 983917007910 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 983917007911 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 983917007912 dimer interface [polypeptide binding]; other site 983917007913 conserved gate region; other site 983917007914 putative PBP binding loops; other site 983917007915 ABC-ATPase subunit interface; other site 983917007916 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 983917007917 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 983917007918 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 983917007919 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 983917007920 NAD(P) binding site [chemical binding]; other site 983917007921 catalytic residues [active] 983917007922 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 983917007923 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 983917007924 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 983917007925 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983917007926 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 983917007927 intersubunit interface [polypeptide binding]; other site 983917007928 active site 983917007929 Zn2+ binding site [ion binding]; other site 983917007930 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 983917007931 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 983917007932 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 983917007933 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 983917007934 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 983917007935 FMN binding site [chemical binding]; other site 983917007936 active site 983917007937 catalytic residues [active] 983917007938 substrate binding site [chemical binding]; other site 983917007939 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917007940 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 983917007941 nucleophilic elbow; other site 983917007942 catalytic triad; other site 983917007943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917007944 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 983917007945 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 983917007946 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 983917007947 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 983917007948 active site 983917007949 DNA binding site [nucleotide binding] 983917007950 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 983917007951 DNA binding site [nucleotide binding] 983917007952 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 983917007953 nucleotide binding site [chemical binding]; other site 983917007954 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 983917007955 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983917007956 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917007957 BON domain; Region: BON; pfam04972 983917007958 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 983917007959 FOG: CBS domain [General function prediction only]; Region: COG0517 983917007960 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_9; cd04622 983917007961 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 983917007962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917007963 Coenzyme A binding pocket [chemical binding]; other site 983917007964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917007965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917007966 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_3; cd08472 983917007967 putative effector binding pocket; other site 983917007968 putative dimerization interface [polypeptide binding]; other site 983917007969 dihydropteroate synthase-related protein; Region: TIGR00284 983917007970 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 983917007971 substrate binding pocket [chemical binding]; other site 983917007972 dimer interface [polypeptide binding]; other site 983917007973 inhibitor binding site; inhibition site 983917007974 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 983917007975 putative DNA binding site [nucleotide binding]; other site 983917007976 Helix-turn-helix domain; Region: HTH_20; pfam12840 983917007977 putative Zn2+ binding site [ion binding]; other site 983917007978 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 983917007979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917007980 DNA-binding site [nucleotide binding]; DNA binding site 983917007981 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 983917007982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917007983 homodimer interface [polypeptide binding]; other site 983917007984 catalytic residue [active] 983917007985 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 983917007986 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 983917007987 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 983917007988 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917007989 active site 983917007990 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 983917007991 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 983917007992 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 983917007993 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 983917007994 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917007995 active site 983917007996 metal binding site [ion binding]; metal-binding site 983917007997 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 983917007998 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 983917007999 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 983917008000 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917008001 catalytic residue [active] 983917008002 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 983917008003 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 983917008004 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 983917008005 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917008006 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 983917008007 Zn binding site [ion binding]; other site 983917008008 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 983917008009 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 983917008010 active site 983917008011 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 983917008012 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917008013 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 983917008014 dimerization interface [polypeptide binding]; other site 983917008015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917008016 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917008017 dimer interface [polypeptide binding]; other site 983917008018 putative CheW interface [polypeptide binding]; other site 983917008019 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 983917008020 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 983917008021 HD domain; Region: HD_4; pfam13328 983917008022 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 983917008023 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 983917008024 synthetase active site [active] 983917008025 NTP binding site [chemical binding]; other site 983917008026 metal binding site [ion binding]; metal-binding site 983917008027 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 983917008028 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 983917008029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917008030 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 983917008031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917008032 NAD(P) binding site [chemical binding]; other site 983917008033 active site 983917008034 Protein of unknown function (DUF541); Region: SIMPL; cl01077 983917008035 osmolarity response regulator; Provisional; Region: ompR; PRK09468 983917008036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008037 active site 983917008038 phosphorylation site [posttranslational modification] 983917008039 intermolecular recognition site; other site 983917008040 dimerization interface [polypeptide binding]; other site 983917008041 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 983917008042 DNA binding site [nucleotide binding] 983917008043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917008044 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 983917008045 dimerization interface [polypeptide binding]; other site 983917008046 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 983917008047 dimer interface [polypeptide binding]; other site 983917008048 phosphorylation site [posttranslational modification] 983917008049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917008050 ATP binding site [chemical binding]; other site 983917008051 Mg2+ binding site [ion binding]; other site 983917008052 G-X-G motif; other site 983917008053 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 983917008054 homotrimer interaction site [polypeptide binding]; other site 983917008055 zinc binding site [ion binding]; other site 983917008056 CDP-binding sites; other site 983917008057 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 983917008058 substrate binding site; other site 983917008059 dimer interface; other site 983917008060 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 983917008061 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 983917008062 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 983917008063 ATP binding site [chemical binding]; other site 983917008064 putative Mg++ binding site [ion binding]; other site 983917008065 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 983917008066 nucleotide binding region [chemical binding]; other site 983917008067 ATP-binding site [chemical binding]; other site 983917008068 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 983917008069 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 983917008070 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 983917008071 motif II; other site 983917008072 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 983917008073 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 983917008074 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917008075 catalytic residue [active] 983917008076 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 983917008077 Methyltransferase domain; Region: Methyltransf_23; pfam13489 983917008078 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 983917008079 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 983917008080 ATP binding site [chemical binding]; other site 983917008081 putative Mg++ binding site [ion binding]; other site 983917008082 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 983917008083 nucleotide binding region [chemical binding]; other site 983917008084 ATP-binding site [chemical binding]; other site 983917008085 Helicase associated domain (HA2); Region: HA2; pfam04408 983917008086 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 983917008087 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 983917008088 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 983917008089 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917008090 N-acetylglutamate synthase; Validated; Region: PRK05279 983917008091 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 983917008092 putative feedback inhibition sensing region; other site 983917008093 putative nucleotide binding site [chemical binding]; other site 983917008094 putative substrate binding site [chemical binding]; other site 983917008095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917008096 Coenzyme A binding pocket [chemical binding]; other site 983917008097 oxidative damage protection protein; Provisional; Region: PRK05408 983917008098 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 983917008099 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 983917008100 H-NS histone family; Region: Histone_HNS; pfam00816 983917008101 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 983917008102 PAS fold; Region: PAS_3; pfam08447 983917008103 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008104 PAS domain; Region: PAS_9; pfam13426 983917008105 putative active site [active] 983917008106 heme pocket [chemical binding]; other site 983917008107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917008108 metal binding site [ion binding]; metal-binding site 983917008109 active site 983917008110 I-site; other site 983917008111 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 983917008112 DNA primase, catalytic core; Region: dnaG; TIGR01391 983917008113 CHC2 zinc finger; Region: zf-CHC2; pfam01807 983917008114 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 983917008115 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 983917008116 active site 983917008117 metal binding site [ion binding]; metal-binding site 983917008118 interdomain interaction site; other site 983917008119 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 983917008120 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 983917008121 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 983917008122 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 983917008123 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 983917008124 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917008125 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 983917008126 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 983917008127 DNA binding residues [nucleotide binding] 983917008128 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 983917008129 cyclase homology domain; Region: CHD; cd07302 983917008130 nucleotidyl binding site; other site 983917008131 metal binding site [ion binding]; metal-binding site 983917008132 dimer interface [polypeptide binding]; other site 983917008133 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 983917008134 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 983917008135 phosphopeptide binding site; other site 983917008136 Response regulator receiver domain; Region: Response_reg; pfam00072 983917008137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008138 active site 983917008139 phosphorylation site [posttranslational modification] 983917008140 intermolecular recognition site; other site 983917008141 dimerization interface [polypeptide binding]; other site 983917008142 ferrochelatase; Reviewed; Region: hemH; PRK00035 983917008143 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 983917008144 C-terminal domain interface [polypeptide binding]; other site 983917008145 active site 983917008146 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 983917008147 active site 983917008148 N-terminal domain interface [polypeptide binding]; other site 983917008149 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 983917008150 RNA binding surface [nucleotide binding]; other site 983917008151 GrpE; Region: GrpE; pfam01025 983917008152 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 983917008153 dimer interface [polypeptide binding]; other site 983917008154 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 983917008155 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 983917008156 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 983917008157 nucleotide binding site [chemical binding]; other site 983917008158 chaperone protein DnaJ; Provisional; Region: PRK10767 983917008159 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 983917008160 HSP70 interaction site [polypeptide binding]; other site 983917008161 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 983917008162 substrate binding site [polypeptide binding]; other site 983917008163 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 983917008164 Zn binding sites [ion binding]; other site 983917008165 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 983917008166 dimer interface [polypeptide binding]; other site 983917008167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 983917008168 active site 983917008169 phosphorylation site [posttranslational modification] 983917008170 intermolecular recognition site; other site 983917008171 dimerization interface [polypeptide binding]; other site 983917008172 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917008173 binding surface 983917008174 TPR motif; other site 983917008175 Tetratricopeptide repeat; Region: TPR_16; pfam13432 983917008176 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 983917008177 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 983917008178 FeS/SAM binding site; other site 983917008179 replicative DNA helicase; Region: DnaB; TIGR00665 983917008180 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 983917008181 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 983917008182 Walker A motif; other site 983917008183 ATP binding site [chemical binding]; other site 983917008184 Walker B motif; other site 983917008185 DNA binding loops [nucleotide binding] 983917008186 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 983917008187 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 983917008188 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 983917008189 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 983917008190 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 983917008191 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 983917008192 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 983917008193 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 983917008194 phosphoenolpyruvate synthase; Validated; Region: PRK06464 983917008195 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 983917008196 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 983917008197 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 983917008198 PEP synthetase regulatory protein; Provisional; Region: PRK05339 983917008199 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 983917008200 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 983917008201 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 983917008202 RNA/DNA hybrid binding site [nucleotide binding]; other site 983917008203 active site 983917008204 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 983917008205 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 983917008206 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 983917008207 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 983917008208 active site 983917008209 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 983917008210 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 983917008211 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 983917008212 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 983917008213 trimer interface [polypeptide binding]; other site 983917008214 active site 983917008215 UDP-GlcNAc binding site [chemical binding]; other site 983917008216 lipid binding site [chemical binding]; lipid-binding site 983917008217 periplasmic chaperone; Provisional; Region: PRK10780 983917008218 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 983917008219 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 983917008220 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 983917008221 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 983917008222 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 983917008223 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 983917008224 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 983917008225 Surface antigen; Region: Bac_surface_Ag; pfam01103 983917008226 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 983917008227 zinc metallopeptidase RseP; Provisional; Region: PRK10779 983917008228 active site 983917008229 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 983917008230 protein binding site [polypeptide binding]; other site 983917008231 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 983917008232 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 983917008233 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 983917008234 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 983917008235 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 983917008236 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 983917008237 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 983917008238 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 983917008239 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 983917008240 catalytic residue [active] 983917008241 putative FPP diphosphate binding site; other site 983917008242 putative FPP binding hydrophobic cleft; other site 983917008243 dimer interface [polypeptide binding]; other site 983917008244 putative IPP diphosphate binding site; other site 983917008245 ribosome recycling factor; Reviewed; Region: frr; PRK00083 983917008246 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 983917008247 hinge region; other site 983917008248 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 983917008249 putative nucleotide binding site [chemical binding]; other site 983917008250 uridine monophosphate binding site [chemical binding]; other site 983917008251 homohexameric interface [polypeptide binding]; other site 983917008252 elongation factor Ts; Provisional; Region: tsf; PRK09377 983917008253 UBA/TS-N domain; Region: UBA; pfam00627 983917008254 Elongation factor TS; Region: EF_TS; pfam00889 983917008255 Elongation factor TS; Region: EF_TS; pfam00889 983917008256 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 983917008257 rRNA interaction site [nucleotide binding]; other site 983917008258 S8 interaction site; other site 983917008259 amidase; Provisional; Region: PRK07056 983917008260 Amidase; Region: Amidase; cl11426 983917008261 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 983917008262 hydroxyglutarate oxidase; Provisional; Region: PRK11728 983917008263 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 983917008264 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 983917008265 ATP binding site [chemical binding]; other site 983917008266 ribonuclease R; Region: RNase_R; TIGR02063 983917008267 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 983917008268 RNB domain; Region: RNB; pfam00773 983917008269 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 983917008270 RNA binding site [nucleotide binding]; other site 983917008271 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 983917008272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917008273 active site 983917008274 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 983917008275 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 983917008276 GDP-binding site [chemical binding]; other site 983917008277 ACT binding site; other site 983917008278 IMP binding site; other site 983917008279 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 983917008280 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 983917008281 motif 1; other site 983917008282 dimer interface [polypeptide binding]; other site 983917008283 active site 983917008284 motif 2; other site 983917008285 motif 3; other site 983917008286 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 983917008287 FtsH protease regulator HflC; Provisional; Region: PRK11029 983917008288 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 983917008289 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 983917008290 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 983917008291 HflK protein; Region: hflK; TIGR01933 983917008292 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 983917008293 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 983917008294 HflX GTPase family; Region: HflX; cd01878 983917008295 G1 box; other site 983917008296 GTP/Mg2+ binding site [chemical binding]; other site 983917008297 Switch I region; other site 983917008298 G2 box; other site 983917008299 G3 box; other site 983917008300 Switch II region; other site 983917008301 G4 box; other site 983917008302 G5 box; other site 983917008303 bacterial Hfq-like; Region: Hfq; cd01716 983917008304 hexamer interface [polypeptide binding]; other site 983917008305 Sm1 motif; other site 983917008306 RNA binding site [nucleotide binding]; other site 983917008307 Sm2 motif; other site 983917008308 GTP-binding protein Der; Reviewed; Region: PRK00093 983917008309 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 983917008310 G1 box; other site 983917008311 GTP/Mg2+ binding site [chemical binding]; other site 983917008312 Switch I region; other site 983917008313 G2 box; other site 983917008314 Switch II region; other site 983917008315 G3 box; other site 983917008316 G4 box; other site 983917008317 G5 box; other site 983917008318 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 983917008319 G1 box; other site 983917008320 GTP/Mg2+ binding site [chemical binding]; other site 983917008321 Switch I region; other site 983917008322 G2 box; other site 983917008323 G3 box; other site 983917008324 Switch II region; other site 983917008325 G4 box; other site 983917008326 G5 box; other site 983917008327 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 983917008328 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 983917008329 Trp docking motif [polypeptide binding]; other site 983917008330 active site 983917008331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 983917008332 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 983917008333 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 983917008334 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 983917008335 dimer interface [polypeptide binding]; other site 983917008336 motif 1; other site 983917008337 active site 983917008338 motif 2; other site 983917008339 motif 3; other site 983917008340 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 983917008341 anticodon binding site; other site 983917008342 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 983917008343 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 983917008344 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 983917008345 Helix-turn-helix domain; Region: HTH_25; pfam13413 983917008346 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 983917008347 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 983917008348 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917008349 binding surface 983917008350 TPR motif; other site 983917008351 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 983917008352 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 983917008353 FeS/SAM binding site; other site 983917008354 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 983917008355 active site 983917008356 multimer interface [polypeptide binding]; other site 983917008357 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 983917008358 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 983917008359 RNA binding surface [nucleotide binding]; other site 983917008360 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 983917008361 probable active site [active] 983917008362 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 983917008363 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 983917008364 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 983917008365 RNA binding surface [nucleotide binding]; other site 983917008366 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 983917008367 active site 983917008368 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 983917008369 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 983917008370 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 983917008371 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 983917008372 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 983917008373 active site 983917008374 Predicted ATPase [General function prediction only]; Region: COG1485 983917008375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917008376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917008377 metal binding site [ion binding]; metal-binding site 983917008378 active site 983917008379 I-site; other site 983917008380 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 983917008381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 983917008382 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 983917008383 Short C-terminal domain; Region: SHOCT; pfam09851 983917008384 PspC domain; Region: PspC; pfam04024 983917008385 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 983917008386 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 983917008387 E3 interaction surface; other site 983917008388 lipoyl attachment site [posttranslational modification]; other site 983917008389 e3 binding domain; Region: E3_binding; pfam02817 983917008390 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 983917008391 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 983917008392 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 983917008393 TPP-binding site [chemical binding]; other site 983917008394 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 983917008395 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 983917008396 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 983917008397 FMN binding site [chemical binding]; other site 983917008398 substrate binding site [chemical binding]; other site 983917008399 putative catalytic residue [active] 983917008400 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 983917008401 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 983917008402 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917008403 active site 983917008404 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 983917008405 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 983917008406 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 983917008407 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 983917008408 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 983917008409 Ligand binding site [chemical binding]; other site 983917008410 Electron transfer flavoprotein domain; Region: ETF; pfam01012 983917008411 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 983917008412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917008413 DNA-binding site [nucleotide binding]; DNA binding site 983917008414 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 983917008415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917008416 homodimer interface [polypeptide binding]; other site 983917008417 catalytic residue [active] 983917008418 macrolide transporter subunit MacA; Provisional; Region: PRK11578 983917008419 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917008420 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917008421 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 983917008422 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917008423 Walker A/P-loop; other site 983917008424 ATP binding site [chemical binding]; other site 983917008425 Q-loop/lid; other site 983917008426 ABC transporter signature motif; other site 983917008427 Walker B; other site 983917008428 D-loop; other site 983917008429 H-loop/switch region; other site 983917008430 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917008431 FtsX-like permease family; Region: FtsX; pfam02687 983917008432 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917008433 BON domain; Region: BON; pfam04972 983917008434 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 983917008435 hypothetical protein; Provisional; Region: PRK09040 983917008436 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917008437 ligand binding site [chemical binding]; other site 983917008438 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 983917008439 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 983917008440 Found in ATP-dependent protease La (LON); Region: LON; smart00464 983917008441 Found in ATP-dependent protease La (LON); Region: LON; smart00464 983917008442 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 983917008443 Walker A motif; other site 983917008444 ATP binding site [chemical binding]; other site 983917008445 Walker B motif; other site 983917008446 arginine finger; other site 983917008447 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 983917008448 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 983917008449 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 983917008450 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 983917008451 Walker A motif; other site 983917008452 ATP binding site [chemical binding]; other site 983917008453 Walker B motif; other site 983917008454 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 983917008455 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 983917008456 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 983917008457 oligomer interface [polypeptide binding]; other site 983917008458 active site residues [active] 983917008459 trigger factor; Provisional; Region: tig; PRK01490 983917008460 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 983917008461 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 983917008462 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983917008463 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917008464 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917008465 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917008466 putative membrane fusion protein; Region: TIGR02828 983917008467 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 983917008468 active site lid residues [active] 983917008469 substrate binding pocket [chemical binding]; other site 983917008470 catalytic residues [active] 983917008471 substrate-Mg2+ binding site; other site 983917008472 aspartate-rich region 1; other site 983917008473 aspartate-rich region 2; other site 983917008474 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 983917008475 active site lid residues [active] 983917008476 substrate binding pocket [chemical binding]; other site 983917008477 catalytic residues [active] 983917008478 substrate-Mg2+ binding site; other site 983917008479 aspartate-rich region 1; other site 983917008480 aspartate-rich region 2; other site 983917008481 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 983917008482 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917008483 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 983917008484 Transcriptional regulator [Transcription]; Region: IclR; COG1414 983917008485 Bacterial transcriptional regulator; Region: IclR; pfam01614 983917008486 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 983917008487 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 983917008488 2-isopropylmalate synthase; Validated; Region: PRK00915 983917008489 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 983917008490 active site 983917008491 catalytic residues [active] 983917008492 metal binding site [ion binding]; metal-binding site 983917008493 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 983917008494 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 983917008495 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 983917008496 ketol-acid reductoisomerase; Provisional; Region: PRK05479 983917008497 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 983917008498 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 983917008499 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 983917008500 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 983917008501 putative valine binding site [chemical binding]; other site 983917008502 dimer interface [polypeptide binding]; other site 983917008503 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 983917008504 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 983917008505 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 983917008506 PYR/PP interface [polypeptide binding]; other site 983917008507 dimer interface [polypeptide binding]; other site 983917008508 TPP binding site [chemical binding]; other site 983917008509 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 983917008510 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 983917008511 TPP-binding site [chemical binding]; other site 983917008512 dimer interface [polypeptide binding]; other site 983917008513 RNA polymerase factor sigma-70; Validated; Region: PRK09047 983917008514 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 983917008515 DNA binding residues [nucleotide binding] 983917008516 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 983917008517 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 983917008518 RDD family; Region: RDD; pfam06271 983917008519 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 983917008520 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 983917008521 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 983917008522 Nitrogen regulatory protein P-II; Region: P-II; smart00938 983917008523 NAD synthetase; Provisional; Region: PRK13981 983917008524 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 983917008525 multimer interface [polypeptide binding]; other site 983917008526 active site 983917008527 catalytic triad [active] 983917008528 protein interface 1 [polypeptide binding]; other site 983917008529 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 983917008530 homodimer interface [polypeptide binding]; other site 983917008531 NAD binding pocket [chemical binding]; other site 983917008532 ATP binding pocket [chemical binding]; other site 983917008533 Mg binding site [ion binding]; other site 983917008534 active-site loop [active] 983917008535 Protein of unknown function, DUF482; Region: DUF482; pfam04339 983917008536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 983917008537 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 983917008538 dimer interface [polypeptide binding]; other site 983917008539 substrate binding site [chemical binding]; other site 983917008540 metal binding sites [ion binding]; metal-binding site 983917008541 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 983917008542 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 983917008543 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 983917008544 ABC1 family; Region: ABC1; cl17513 983917008545 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 983917008546 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 983917008547 G1 box; other site 983917008548 putative GEF interaction site [polypeptide binding]; other site 983917008549 GTP/Mg2+ binding site [chemical binding]; other site 983917008550 Switch I region; other site 983917008551 G2 box; other site 983917008552 G3 box; other site 983917008553 Switch II region; other site 983917008554 G4 box; other site 983917008555 G5 box; other site 983917008556 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 983917008557 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 983917008558 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 983917008559 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 983917008560 RNA binding site [nucleotide binding]; other site 983917008561 active site 983917008562 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 983917008563 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 983917008564 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 983917008565 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 983917008566 translation initiation factor IF-2; Region: IF-2; TIGR00487 983917008567 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 983917008568 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 983917008569 G1 box; other site 983917008570 putative GEF interaction site [polypeptide binding]; other site 983917008571 GTP/Mg2+ binding site [chemical binding]; other site 983917008572 Switch I region; other site 983917008573 G2 box; other site 983917008574 G3 box; other site 983917008575 Switch II region; other site 983917008576 G4 box; other site 983917008577 G5 box; other site 983917008578 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 983917008579 Translation-initiation factor 2; Region: IF-2; pfam11987 983917008580 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 983917008581 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 983917008582 NusA N-terminal domain; Region: NusA_N; pfam08529 983917008583 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 983917008584 RNA binding site [nucleotide binding]; other site 983917008585 homodimer interface [polypeptide binding]; other site 983917008586 NusA-like KH domain; Region: KH_5; pfam13184 983917008587 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 983917008588 G-X-X-G motif; other site 983917008589 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 983917008590 ribosome maturation protein RimP; Reviewed; Region: PRK00092 983917008591 Sm and related proteins; Region: Sm_like; cl00259 983917008592 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 983917008593 putative oligomer interface [polypeptide binding]; other site 983917008594 putative RNA binding site [nucleotide binding]; other site 983917008595 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 983917008596 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 983917008597 NAD binding site [chemical binding]; other site 983917008598 homotetramer interface [polypeptide binding]; other site 983917008599 homodimer interface [polypeptide binding]; other site 983917008600 substrate binding site [chemical binding]; other site 983917008601 active site 983917008602 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 983917008603 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 983917008604 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 983917008605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917008606 catalytic residue [active] 983917008607 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 983917008608 ParB-like nuclease domain; Region: ParBc; cl02129 983917008609 multiple promoter invertase; Provisional; Region: mpi; PRK13413 983917008610 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 983917008611 catalytic residues [active] 983917008612 catalytic nucleophile [active] 983917008613 Presynaptic Site I dimer interface [polypeptide binding]; other site 983917008614 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 983917008615 Synaptic Flat tetramer interface [polypeptide binding]; other site 983917008616 Synaptic Site I dimer interface [polypeptide binding]; other site 983917008617 DNA binding site [nucleotide binding] 983917008618 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 983917008619 DNA-binding interface [nucleotide binding]; DNA binding site 983917008620 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 983917008621 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 983917008622 active site 983917008623 Int/Topo IB signature motif; other site 983917008624 catalytic residues [active] 983917008625 DNA binding site [nucleotide binding] 983917008626 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917008627 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 983917008628 putative ADP-binding pocket [chemical binding]; other site 983917008629 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 983917008630 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 983917008631 putative active site [active] 983917008632 putative metal binding site [ion binding]; other site 983917008633 EamA-like transporter family; Region: EamA; pfam00892 983917008634 Cupin domain; Region: Cupin_2; cl17218 983917008635 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917008636 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 983917008637 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 983917008638 TRAP binding interface [polypeptide binding]; other site 983917008639 Zn binding site [ion binding]; other site 983917008640 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 983917008641 Fructosamine kinase; Region: Fructosamin_kin; cl17579 983917008642 PEGA domain; Region: PEGA; pfam08308 983917008643 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 983917008644 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 983917008645 Permease; Region: Permease; pfam02405 983917008646 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 983917008647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917008648 Walker A/P-loop; other site 983917008649 ATP binding site [chemical binding]; other site 983917008650 Q-loop/lid; other site 983917008651 ABC transporter signature motif; other site 983917008652 Walker B; other site 983917008653 D-loop; other site 983917008654 H-loop/switch region; other site 983917008655 mce related protein; Region: MCE; pfam02470 983917008656 Protein of unknown function (DUF330); Region: DUF330; pfam03886 983917008657 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 983917008658 fumarate hydratase; Reviewed; Region: fumC; PRK00485 983917008659 Class II fumarases; Region: Fumarase_classII; cd01362 983917008660 active site 983917008661 tetramer interface [polypeptide binding]; other site 983917008662 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 983917008663 putative active site [active] 983917008664 catalytic site [active] 983917008665 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 983917008666 PLD-like domain; Region: PLDc_2; pfam13091 983917008667 putative active site [active] 983917008668 catalytic site [active] 983917008669 BON domain; Region: BON; pfam04972 983917008670 CHASE3 domain; Region: CHASE3; pfam05227 983917008671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917008672 Histidine kinase; Region: HisKA_3; pfam07730 983917008673 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917008674 ATP binding site [chemical binding]; other site 983917008675 Mg2+ binding site [ion binding]; other site 983917008676 G-X-G motif; other site 983917008677 Response regulator receiver domain; Region: Response_reg; pfam00072 983917008678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008679 active site 983917008680 phosphorylation site [posttranslational modification] 983917008681 intermolecular recognition site; other site 983917008682 dimerization interface [polypeptide binding]; other site 983917008683 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 983917008684 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 983917008685 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 983917008686 dimer interface [polypeptide binding]; other site 983917008687 PYR/PP interface [polypeptide binding]; other site 983917008688 TPP binding site [chemical binding]; other site 983917008689 substrate binding site [chemical binding]; other site 983917008690 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 983917008691 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 983917008692 TPP-binding site [chemical binding]; other site 983917008693 putative dimer interface [polypeptide binding]; other site 983917008694 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 983917008695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 983917008696 4Fe-4S binding domain; Region: Fer4; pfam00037 983917008697 TIR domain; Region: TIR_2; pfam13676 983917008698 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 983917008699 PAS domain; Region: PAS_9; pfam13426 983917008700 putative active site [active] 983917008701 heme pocket [chemical binding]; other site 983917008702 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 983917008703 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008704 PAS domain; Region: PAS_9; pfam13426 983917008705 putative active site [active] 983917008706 heme pocket [chemical binding]; other site 983917008707 CHAT domain; Region: CHAT; cl17868 983917008708 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 983917008709 PUCC protein; Region: PUCC; pfam03209 983917008710 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 983917008711 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983917008712 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983917008713 active site 983917008714 metal binding site [ion binding]; metal-binding site 983917008715 PAS domain; Region: PAS_9; pfam13426 983917008716 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917008717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917008718 metal binding site [ion binding]; metal-binding site 983917008719 active site 983917008720 I-site; other site 983917008721 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 983917008722 dimanganese center [ion binding]; other site 983917008723 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 983917008724 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 983917008725 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 983917008726 C-terminal domain interface [polypeptide binding]; other site 983917008727 GSH binding site (G-site) [chemical binding]; other site 983917008728 dimer interface [polypeptide binding]; other site 983917008729 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 983917008730 dimer interface [polypeptide binding]; other site 983917008731 N-terminal domain interface [polypeptide binding]; other site 983917008732 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 983917008733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008734 active site 983917008735 phosphorylation site [posttranslational modification] 983917008736 intermolecular recognition site; other site 983917008737 dimerization interface [polypeptide binding]; other site 983917008738 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 983917008739 dimerization interface [polypeptide binding]; other site 983917008740 DNA binding residues [nucleotide binding] 983917008741 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 983917008742 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917008743 dimer interface [polypeptide binding]; other site 983917008744 phosphorylation site [posttranslational modification] 983917008745 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917008746 ATP binding site [chemical binding]; other site 983917008747 Mg2+ binding site [ion binding]; other site 983917008748 G-X-G motif; other site 983917008749 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917008750 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917008751 Cytochrome c; Region: Cytochrom_C; pfam00034 983917008752 Cytochrome c [Energy production and conversion]; Region: COG3258 983917008753 Cytochrome c; Region: Cytochrom_C; pfam00034 983917008754 glutamate racemase; Provisional; Region: PRK00865 983917008755 Uncharacterized conserved protein [Function unknown]; Region: COG1284 983917008756 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 983917008757 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 983917008758 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 983917008759 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917008760 catalytic residue [active] 983917008761 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 983917008762 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 983917008763 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 983917008764 intersubunit interface [polypeptide binding]; other site 983917008765 Cytochrome c; Region: Cytochrom_C; cl11414 983917008766 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 983917008767 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 983917008768 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 983917008769 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 983917008770 dimerization interface [polypeptide binding]; other site 983917008771 ligand binding site [chemical binding]; other site 983917008772 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 983917008773 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 983917008774 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 983917008775 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 983917008776 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 983917008777 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 983917008778 Predicted transcriptional regulator [Transcription]; Region: COG2378 983917008779 HTH domain; Region: HTH_11; pfam08279 983917008780 WYL domain; Region: WYL; pfam13280 983917008781 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 983917008782 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 983917008783 Potassium binding sites [ion binding]; other site 983917008784 Cesium cation binding sites [ion binding]; other site 983917008785 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 983917008786 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917008787 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008788 putative active site [active] 983917008789 heme pocket [chemical binding]; other site 983917008790 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917008791 dimer interface [polypeptide binding]; other site 983917008792 phosphorylation site [posttranslational modification] 983917008793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917008794 ATP binding site [chemical binding]; other site 983917008795 G-X-G motif; other site 983917008796 Response regulator receiver domain; Region: Response_reg; pfam00072 983917008797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008798 active site 983917008799 phosphorylation site [posttranslational modification] 983917008800 intermolecular recognition site; other site 983917008801 dimerization interface [polypeptide binding]; other site 983917008802 glycogen synthase; Provisional; Region: glgA; PRK00654 983917008803 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 983917008804 ADP-binding pocket [chemical binding]; other site 983917008805 homodimer interface [polypeptide binding]; other site 983917008806 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 983917008807 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 983917008808 ligand binding site; other site 983917008809 oligomer interface; other site 983917008810 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 983917008811 dimer interface [polypeptide binding]; other site 983917008812 N-terminal domain interface [polypeptide binding]; other site 983917008813 sulfate 1 binding site; other site 983917008814 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 983917008815 homodimer interface [polypeptide binding]; other site 983917008816 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 983917008817 active site pocket [active] 983917008818 glycogen branching enzyme; Provisional; Region: PRK05402 983917008819 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 983917008820 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 983917008821 active site 983917008822 catalytic site [active] 983917008823 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 983917008824 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 983917008825 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 983917008826 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 983917008827 active site 983917008828 catalytic site [active] 983917008829 4-alpha-glucanotransferase; Provisional; Region: PRK14508 983917008830 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 983917008831 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 983917008832 dimerization interface [polypeptide binding]; other site 983917008833 ligand binding site [chemical binding]; other site 983917008834 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 983917008835 multifunctional aminopeptidase A; Provisional; Region: PRK00913 983917008836 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 983917008837 interface (dimer of trimers) [polypeptide binding]; other site 983917008838 Substrate-binding/catalytic site; other site 983917008839 Zn-binding sites [ion binding]; other site 983917008840 Predicted permeases [General function prediction only]; Region: COG0795 983917008841 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 983917008842 Predicted permeases [General function prediction only]; Region: COG0795 983917008843 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 983917008844 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 983917008845 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 983917008846 putative active site [active] 983917008847 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 983917008848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917008849 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 983917008850 substrate binding site [chemical binding]; other site 983917008851 dimerization interface [polypeptide binding]; other site 983917008852 methionine aminotransferase; Validated; Region: PRK09082 983917008853 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 983917008854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917008855 homodimer interface [polypeptide binding]; other site 983917008856 catalytic residue [active] 983917008857 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917008858 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 983917008859 ligand binding site [chemical binding]; other site 983917008860 flexible hinge region; other site 983917008861 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 983917008862 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This 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); Region: ACAD10_11_like; cd05154 983917008863 Phosphotransferase enzyme family; Region: APH; pfam01636 983917008864 putative active site [active] 983917008865 putative substrate binding site [chemical binding]; other site 983917008866 ATP binding site [chemical binding]; other site 983917008867 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983917008868 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 983917008869 FAD binding site [chemical binding]; other site 983917008870 substrate binding site [chemical binding]; other site 983917008871 catalytic base [active] 983917008872 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 983917008873 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 983917008874 C-terminal domain interface [polypeptide binding]; other site 983917008875 GSH binding site (G-site) [chemical binding]; other site 983917008876 dimer interface [polypeptide binding]; other site 983917008877 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 983917008878 N-terminal domain interface [polypeptide binding]; other site 983917008879 putative dimer interface [polypeptide binding]; other site 983917008880 active site 983917008881 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 983917008882 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 983917008883 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 983917008884 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917008885 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 983917008886 N-terminal plug; other site 983917008887 ligand-binding site [chemical binding]; other site 983917008888 High-affinity nickel-transport protein; Region: NicO; cl00964 983917008889 nickel responsive regulator; Provisional; Region: PRK02967 983917008890 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 983917008891 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 983917008892 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 983917008893 dimer interface [polypeptide binding]; other site 983917008894 PAS domain S-box; Region: sensory_box; TIGR00229 983917008895 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008896 putative active site [active] 983917008897 heme pocket [chemical binding]; other site 983917008898 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008899 PAS fold; Region: PAS_3; pfam08447 983917008900 putative active site [active] 983917008901 heme pocket [chemical binding]; other site 983917008902 PAS fold; Region: PAS_4; pfam08448 983917008903 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008904 PAS domain; Region: PAS_9; pfam13426 983917008905 putative active site [active] 983917008906 heme pocket [chemical binding]; other site 983917008907 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917008908 dimer interface [polypeptide binding]; other site 983917008909 phosphorylation site [posttranslational modification] 983917008910 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917008911 ATP binding site [chemical binding]; other site 983917008912 Mg2+ binding site [ion binding]; other site 983917008913 G-X-G motif; other site 983917008914 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917008915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008916 active site 983917008917 phosphorylation site [posttranslational modification] 983917008918 intermolecular recognition site; other site 983917008919 dimerization interface [polypeptide binding]; other site 983917008920 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 983917008921 DNA-binding site [nucleotide binding]; DNA binding site 983917008922 RNA-binding motif; other site 983917008923 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917008924 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 983917008925 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 983917008926 N-terminal plug; other site 983917008927 ligand-binding site [chemical binding]; other site 983917008928 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 983917008929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917008930 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 983917008931 dimer interface [polypeptide binding]; other site 983917008932 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 983917008933 putative hydrophobic ligand binding site [chemical binding]; other site 983917008934 YCII-related domain; Region: YCII; cl00999 983917008935 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917008936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917008937 metal binding site [ion binding]; metal-binding site 983917008938 active site 983917008939 I-site; other site 983917008940 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 983917008941 active site 983917008942 SAM binding site [chemical binding]; other site 983917008943 homodimer interface [polypeptide binding]; other site 983917008944 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 983917008945 PAS domain S-box; Region: sensory_box; TIGR00229 983917008946 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917008947 putative active site [active] 983917008948 heme pocket [chemical binding]; other site 983917008949 GAF domain; Region: GAF_3; pfam13492 983917008950 GAF domain; Region: GAF_2; pfam13185 983917008951 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917008952 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917008953 metal binding site [ion binding]; metal-binding site 983917008954 active site 983917008955 I-site; other site 983917008956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917008957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917008958 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 983917008959 putative dimerization interface [polypeptide binding]; other site 983917008960 tricarballylate dehydrogenase; Validated; Region: PRK08274 983917008961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917008962 tricarballylate utilization protein B; Provisional; Region: PRK15033 983917008963 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917008964 Chromate transporter; Region: Chromate_transp; pfam02417 983917008965 Chromate transporter; Region: Chromate_transp; pfam02417 983917008966 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917008967 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 983917008968 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 983917008969 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917008970 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917008971 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917008972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917008973 active site 983917008974 phosphorylation site [posttranslational modification] 983917008975 intermolecular recognition site; other site 983917008976 dimerization interface [polypeptide binding]; other site 983917008977 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 983917008978 DNA binding site [nucleotide binding] 983917008979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917008980 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 983917008981 dimerization interface [polypeptide binding]; other site 983917008982 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917008983 dimer interface [polypeptide binding]; other site 983917008984 phosphorylation site [posttranslational modification] 983917008985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917008986 ATP binding site [chemical binding]; other site 983917008987 Mg2+ binding site [ion binding]; other site 983917008988 G-X-G motif; other site 983917008989 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 983917008990 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 983917008991 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983917008992 classical (c) SDRs; Region: SDR_c; cd05233 983917008993 NAD(P) binding site [chemical binding]; other site 983917008994 active site 983917008995 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983917008996 classical (c) SDRs; Region: SDR_c; cd05233 983917008997 NAD(P) binding site [chemical binding]; other site 983917008998 active site 983917008999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917009000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917009001 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 983917009002 putative effector binding pocket; other site 983917009003 dimerization interface [polypeptide binding]; other site 983917009004 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 983917009005 Pirin-related protein [General function prediction only]; Region: COG1741 983917009006 Pirin; Region: Pirin; pfam02678 983917009007 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 983917009008 YCII-related domain; Region: YCII; cl00999 983917009009 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 983917009010 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 983917009011 DNA binding residues [nucleotide binding] 983917009012 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917009013 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 983917009014 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 983917009015 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983917009016 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917009017 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917009018 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917009019 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 983917009020 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917009021 putative substrate translocation pore; other site 983917009022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917009023 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 983917009024 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983917009025 classical (c) SDRs; Region: SDR_c; cd05233 983917009026 NAD(P) binding site [chemical binding]; other site 983917009027 active site 983917009028 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983917009029 classical (c) SDRs; Region: SDR_c; cd05233 983917009030 NAD(P) binding site [chemical binding]; other site 983917009031 active site 983917009032 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 983917009033 active site 983917009034 oxalacetate binding site [chemical binding]; other site 983917009035 citrylCoA binding site [chemical binding]; other site 983917009036 coenzyme A binding site [chemical binding]; other site 983917009037 catalytic triad [active] 983917009038 acyl-CoA synthetase; Validated; Region: PRK06188 983917009039 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 983917009040 acyl-activating enzyme (AAE) consensus motif; other site 983917009041 putative AMP binding site [chemical binding]; other site 983917009042 putative active site [active] 983917009043 putative CoA binding site [chemical binding]; other site 983917009044 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917009045 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 983917009046 Bacterial transcriptional regulator; Region: IclR; pfam01614 983917009047 Transposase domain (DUF772); Region: DUF772; pfam05598 983917009048 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 983917009049 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 983917009050 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 983917009051 Restriction endonuclease; Region: Mrr_cat; pfam04471 983917009052 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 983917009053 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 983917009054 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 983917009055 homodimer interface [polypeptide binding]; other site 983917009056 chemical substrate binding site [chemical binding]; other site 983917009057 oligomer interface [polypeptide binding]; other site 983917009058 metal binding site [ion binding]; metal-binding site 983917009059 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 983917009060 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 983917009061 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 983917009062 dimerization interface [polypeptide binding]; other site 983917009063 active site 983917009064 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 983917009065 non-specific DNA binding site [nucleotide binding]; other site 983917009066 salt bridge; other site 983917009067 sequence-specific DNA binding site [nucleotide binding]; other site 983917009068 Domain of unknown function (DUF955); Region: DUF955; pfam06114 983917009069 ParB-like nuclease domain; Region: ParB; smart00470 983917009070 KorB domain; Region: KorB; pfam08535 983917009071 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 983917009072 Cupin domain; Region: Cupin_2; cl17218 983917009073 integrase; Provisional; Region: PRK09692 983917009074 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 983917009075 active site 983917009076 Int/Topo IB signature motif; other site 983917009077 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917009078 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 983917009079 putative DNA binding site [nucleotide binding]; other site 983917009080 putative Zn2+ binding site [ion binding]; other site 983917009081 AsnC family; Region: AsnC_trans_reg; pfam01037 983917009082 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 983917009083 aspartate racemase; Region: asp_race; TIGR00035 983917009084 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 983917009085 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983917009086 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917009087 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917009088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917009089 metal binding site [ion binding]; metal-binding site 983917009090 active site 983917009091 I-site; other site 983917009092 Peptidase family M23; Region: Peptidase_M23; pfam01551 983917009093 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 983917009094 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 983917009095 N-terminal plug; other site 983917009096 ligand-binding site [chemical binding]; other site 983917009097 Phytase; Region: Phytase; cl17685 983917009098 Phytase; Region: Phytase; cl17685 983917009099 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 983917009100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917009101 active site 983917009102 phosphorylation site [posttranslational modification] 983917009103 intermolecular recognition site; other site 983917009104 dimerization interface [polypeptide binding]; other site 983917009105 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 983917009106 DNA binding site [nucleotide binding] 983917009107 sensor protein QseC; Provisional; Region: PRK10337 983917009108 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917009109 dimer interface [polypeptide binding]; other site 983917009110 phosphorylation site [posttranslational modification] 983917009111 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917009112 ATP binding site [chemical binding]; other site 983917009113 Mg2+ binding site [ion binding]; other site 983917009114 G-X-G motif; other site 983917009115 Uncharacterized conserved protein [Function unknown]; Region: COG3791 983917009116 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917009117 TPR motif; other site 983917009118 binding surface 983917009119 short chain dehydrogenase; Provisional; Region: PRK09072 983917009120 classical (c) SDRs; Region: SDR_c; cd05233 983917009121 NAD(P) binding site [chemical binding]; other site 983917009122 active site 983917009123 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 983917009124 heme binding pocket [chemical binding]; other site 983917009125 heme ligand [chemical binding]; other site 983917009126 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917009127 AMP-binding enzyme; Region: AMP-binding; pfam00501 983917009128 acyl-activating enzyme (AAE) consensus motif; other site 983917009129 AMP binding site [chemical binding]; other site 983917009130 active site 983917009131 CoA binding site [chemical binding]; other site 983917009132 Thermostable hemolysin; Region: T_hemolysin; pfam12261 983917009133 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 983917009134 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917009135 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 983917009136 acyl-activating enzyme (AAE) consensus motif; other site 983917009137 acyl-activating enzyme (AAE) consensus motif; other site 983917009138 putative AMP binding site [chemical binding]; other site 983917009139 putative active site [active] 983917009140 putative CoA binding site [chemical binding]; other site 983917009141 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917009142 PAS domain; Region: PAS_9; pfam13426 983917009143 putative active site [active] 983917009144 heme pocket [chemical binding]; other site 983917009145 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917009146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917009147 dimer interface [polypeptide binding]; other site 983917009148 putative CheW interface [polypeptide binding]; other site 983917009149 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 983917009150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 983917009151 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 983917009152 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 983917009153 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917009154 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 983917009155 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 983917009156 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 983917009157 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 983917009158 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917009159 TPR motif; other site 983917009160 binding surface 983917009161 Protein of unknown function (DUF770); Region: DUF770; cl01402 983917009162 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 983917009163 Protein of unknown function (DUF877); Region: DUF877; pfam05943 983917009164 Protein of unknown function (DUF796); Region: DUF796; pfam05638 983917009165 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 983917009166 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 983917009167 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 983917009168 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 983917009169 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 983917009170 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 983917009171 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 983917009172 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917009173 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 983917009174 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 983917009175 catalytic residues [active] 983917009176 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 983917009177 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 983917009178 Secretin and TonB N terminus short domain; Region: STN; smart00965 983917009179 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 983917009180 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 983917009181 N-terminal plug; other site 983917009182 ligand-binding site [chemical binding]; other site 983917009183 fec operon regulator FecR; Reviewed; Region: PRK09774 983917009184 FecR protein; Region: FecR; pfam04773 983917009185 RNA polymerase sigma factor; Provisional; Region: PRK12528 983917009186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917009187 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 983917009188 DNA binding residues [nucleotide binding] 983917009189 Secretin and TonB N terminus short domain; Region: STN; smart00965 983917009190 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 983917009191 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 983917009192 N-terminal plug; other site 983917009193 ligand-binding site [chemical binding]; other site 983917009194 fec operon regulator FecR; Reviewed; Region: PRK09774 983917009195 FecR protein; Region: FecR; pfam04773 983917009196 RNA polymerase sigma factor; Provisional; Region: PRK12528 983917009197 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917009198 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 983917009199 DNA binding residues [nucleotide binding] 983917009200 Secretin and TonB N terminus short domain; Region: STN; smart00965 983917009201 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 983917009202 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 983917009203 N-terminal plug; other site 983917009204 ligand-binding site [chemical binding]; other site 983917009205 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 983917009206 FecR protein; Region: FecR; pfam04773 983917009207 RNA polymerase sigma factor; Provisional; Region: PRK12528 983917009208 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917009209 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 983917009210 DNA binding residues [nucleotide binding] 983917009211 Secretin and TonB N terminus short domain; Region: STN; smart00965 983917009212 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 983917009213 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 983917009214 N-terminal plug; other site 983917009215 ligand-binding site [chemical binding]; other site 983917009216 fec operon regulator FecR; Reviewed; Region: PRK09774 983917009217 FecR protein; Region: FecR; pfam04773 983917009218 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 983917009219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917009220 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 983917009221 DNA binding residues [nucleotide binding] 983917009222 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 983917009223 NHL repeat; Region: NHL; pfam01436 983917009224 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 983917009225 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917009226 dimer interface [polypeptide binding]; other site 983917009227 putative CheW interface [polypeptide binding]; other site 983917009228 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 983917009229 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983917009230 Soluble P-type ATPase [General function prediction only]; Region: COG4087 983917009231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917009232 RNA polymerase sigma factor; Reviewed; Region: PRK12527 983917009233 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 983917009234 DNA binding residues [nucleotide binding] 983917009235 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 983917009236 FecR protein; Region: FecR; pfam04773 983917009237 Secretin and TonB N terminus short domain; Region: STN; smart00965 983917009238 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983917009239 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 983917009240 N-terminal plug; other site 983917009241 ligand-binding site [chemical binding]; other site 983917009242 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 983917009243 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 983917009244 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 983917009245 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 983917009246 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917009247 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 983917009248 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 983917009249 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 983917009250 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917009251 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 983917009252 catalytic motif [active] 983917009253 Catalytic residue [active] 983917009254 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 983917009255 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983917009256 catalytic residue [active] 983917009257 benzoate transporter; Region: benE; TIGR00843 983917009258 Benzoate membrane transport protein; Region: BenE; pfam03594 983917009259 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 983917009260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917009261 DNA-binding site [nucleotide binding]; DNA binding site 983917009262 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 983917009263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917009264 homodimer interface [polypeptide binding]; other site 983917009265 catalytic residue [active] 983917009266 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 983917009267 HAMP domain; Region: HAMP; pfam00672 983917009268 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917009269 dimer interface [polypeptide binding]; other site 983917009270 putative CheW interface [polypeptide binding]; other site 983917009271 aspartate aminotransferase; Provisional; Region: PRK05764 983917009272 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 983917009273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917009274 homodimer interface [polypeptide binding]; other site 983917009275 catalytic residue [active] 983917009276 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 983917009277 FAD binding domain; Region: FAD_binding_4; pfam01565 983917009278 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 983917009279 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 983917009280 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 983917009281 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 983917009282 Walker A/P-loop; other site 983917009283 ATP binding site [chemical binding]; other site 983917009284 Q-loop/lid; other site 983917009285 ABC transporter signature motif; other site 983917009286 Walker B; other site 983917009287 D-loop; other site 983917009288 H-loop/switch region; other site 983917009289 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 983917009290 dimer interface [polypeptide binding]; other site 983917009291 conserved gate region; other site 983917009292 ABC-ATPase subunit interface; other site 983917009293 Cupin domain; Region: Cupin_2; pfam07883 983917009294 Protein of unknown function DUF126; Region: DUF126; pfam01989 983917009295 substrate binding site [chemical binding]; other site 983917009296 Protein of unknown function (DUF521); Region: DUF521; pfam04412 983917009297 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 983917009298 substrate binding site [chemical binding]; other site 983917009299 ligand binding site [chemical binding]; other site 983917009300 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917009301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 983917009302 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 983917009303 GMP synthase; Reviewed; Region: guaA; PRK00074 983917009304 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 983917009305 AMP/PPi binding site [chemical binding]; other site 983917009306 candidate oxyanion hole; other site 983917009307 catalytic triad [active] 983917009308 potential glutamine specificity residues [chemical binding]; other site 983917009309 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 983917009310 ATP Binding subdomain [chemical binding]; other site 983917009311 Ligand Binding sites [chemical binding]; other site 983917009312 Dimerization subdomain; other site 983917009313 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 983917009314 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917009315 putative substrate translocation pore; other site 983917009316 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 983917009317 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 983917009318 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 983917009319 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 983917009320 active site 983917009321 hypothetical protein; Validated; Region: PRK01777 983917009322 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 983917009323 putative coenzyme Q binding site [chemical binding]; other site 983917009324 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 983917009325 SmpB-tmRNA interface; other site 983917009326 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_15; cd07264 983917009327 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917009328 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917009329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983917009330 cystathionine beta-lyase; Provisional; Region: PRK07050 983917009331 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 983917009332 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917009333 catalytic residue [active] 983917009334 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 983917009335 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 983917009336 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 983917009337 FeS/SAM binding site; other site 983917009338 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 983917009339 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 983917009340 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 983917009341 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 983917009342 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 983917009343 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 983917009344 Uncharacterized conserved protein [Function unknown]; Region: COG3379 983917009345 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 983917009346 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 983917009347 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 983917009348 active site 983917009349 Acyl transferase domain; Region: Acyl_transf_1; cl08282 983917009350 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 983917009351 Acyl transferase domain; Region: Acyl_transf_1; cl08282 983917009352 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 983917009353 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 983917009354 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 983917009355 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 983917009356 phosphate binding site [ion binding]; other site 983917009357 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 983917009358 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 983917009359 active site 983917009360 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 983917009361 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 983917009362 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 983917009363 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 983917009364 putative NADP binding site [chemical binding]; other site 983917009365 active site 983917009366 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 983917009367 Pleckstrin homology-like domain; Region: PH-like; cl17171 983917009368 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917009369 dimer interface [polypeptide binding]; other site 983917009370 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 983917009371 putative CheW interface [polypeptide binding]; other site 983917009372 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917009373 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917009374 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917009375 Sulfatase; Region: Sulfatase; cl17466 983917009376 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 983917009377 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 983917009378 active site 983917009379 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 983917009380 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 983917009381 Active Sites [active] 983917009382 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 983917009383 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 983917009384 CysD dimerization site [polypeptide binding]; other site 983917009385 G1 box; other site 983917009386 putative GEF interaction site [polypeptide binding]; other site 983917009387 GTP/Mg2+ binding site [chemical binding]; other site 983917009388 Switch I region; other site 983917009389 G2 box; other site 983917009390 G3 box; other site 983917009391 Switch II region; other site 983917009392 G4 box; other site 983917009393 G5 box; other site 983917009394 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 983917009395 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 983917009396 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 983917009397 ligand-binding site [chemical binding]; other site 983917009398 peroxiredoxin; Region: AhpC; TIGR03137 983917009399 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 983917009400 dimer interface [polypeptide binding]; other site 983917009401 decamer (pentamer of dimers) interface [polypeptide binding]; other site 983917009402 catalytic triad [active] 983917009403 peroxidatic and resolving cysteines [active] 983917009404 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 983917009405 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 983917009406 catalytic residue [active] 983917009407 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 983917009408 catalytic residues [active] 983917009409 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917009410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 983917009411 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 983917009412 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 983917009413 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 983917009414 catalytic triad [active] 983917009415 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 983917009416 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 983917009417 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 983917009418 active site 983917009419 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 983917009420 Ligand Binding Site [chemical binding]; other site 983917009421 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 983917009422 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917009423 putative substrate translocation pore; other site 983917009424 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 983917009425 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917009426 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917009427 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917009428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917009429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917009430 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 983917009431 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 983917009432 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 983917009433 Walker A/P-loop; other site 983917009434 ATP binding site [chemical binding]; other site 983917009435 Q-loop/lid; other site 983917009436 ABC transporter signature motif; other site 983917009437 Walker B; other site 983917009438 D-loop; other site 983917009439 H-loop/switch region; other site 983917009440 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 983917009441 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 983917009442 dimer interface [polypeptide binding]; other site 983917009443 conserved gate region; other site 983917009444 putative PBP binding loops; other site 983917009445 ABC-ATPase subunit interface; other site 983917009446 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 983917009447 dimer interface [polypeptide binding]; other site 983917009448 conserved gate region; other site 983917009449 putative PBP binding loops; other site 983917009450 ABC-ATPase subunit interface; other site 983917009451 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 983917009452 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 983917009453 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 983917009454 motif II; other site 983917009455 FAD dependent oxidoreductase; Region: DAO; pfam01266 983917009456 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 983917009457 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 983917009458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917009459 catalytic residue [active] 983917009460 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 983917009461 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 983917009462 dimer interface [polypeptide binding]; other site 983917009463 conserved gate region; other site 983917009464 putative PBP binding loops; other site 983917009465 ABC-ATPase subunit interface; other site 983917009466 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 983917009467 dimer interface [polypeptide binding]; other site 983917009468 conserved gate region; other site 983917009469 putative PBP binding loops; other site 983917009470 ABC-ATPase subunit interface; other site 983917009471 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 983917009472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917009473 Walker A/P-loop; other site 983917009474 ATP binding site [chemical binding]; other site 983917009475 Q-loop/lid; other site 983917009476 ABC transporter signature motif; other site 983917009477 Walker B; other site 983917009478 D-loop; other site 983917009479 H-loop/switch region; other site 983917009480 TOBE domain; Region: TOBE_2; pfam08402 983917009481 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917009482 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 983917009483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917009484 DNA-binding site [nucleotide binding]; DNA binding site 983917009485 FCD domain; Region: FCD; pfam07729 983917009486 4-aminobutyrate aminotransferase; Provisional; Region: PRK06082 983917009487 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 983917009488 inhibitor-cofactor binding pocket; inhibition site 983917009489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917009490 catalytic residue [active] 983917009491 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 983917009492 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 983917009493 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917009494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917009495 metal binding site [ion binding]; metal-binding site 983917009496 active site 983917009497 I-site; other site 983917009498 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917009499 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917009500 dimer interface [polypeptide binding]; other site 983917009501 putative CheW interface [polypeptide binding]; other site 983917009502 hypothetical protein; Provisional; Region: PRK09946 983917009503 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 983917009504 Ligand Binding Site [chemical binding]; other site 983917009505 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 983917009506 active site 983917009507 catalytic triad [active] 983917009508 calcium binding site [ion binding]; other site 983917009509 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 983917009510 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 983917009511 aspartate kinase; Reviewed; Region: PRK06635 983917009512 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 983917009513 putative nucleotide binding site [chemical binding]; other site 983917009514 putative catalytic residues [active] 983917009515 putative Mg ion binding site [ion binding]; other site 983917009516 putative aspartate binding site [chemical binding]; other site 983917009517 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 983917009518 putative allosteric regulatory site; other site 983917009519 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 983917009520 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 983917009521 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 983917009522 Ligand Binding Site [chemical binding]; other site 983917009523 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 983917009524 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 983917009525 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 983917009526 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 983917009527 endonuclease III; Region: ENDO3c; smart00478 983917009528 minor groove reading motif; other site 983917009529 helix-hairpin-helix signature motif; other site 983917009530 substrate binding pocket [chemical binding]; other site 983917009531 active site 983917009532 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 983917009533 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 983917009534 active site 983917009535 HIGH motif; other site 983917009536 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 983917009537 KMSKS motif; other site 983917009538 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 983917009539 TPR repeat; Region: TPR_11; pfam13414 983917009540 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917009541 TPR motif; other site 983917009542 binding surface 983917009543 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 983917009544 substrate binding site [chemical binding]; other site 983917009545 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 983917009546 substrate binding site [chemical binding]; other site 983917009547 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 983917009548 putative active site [active] 983917009549 putative metal binding site [ion binding]; other site 983917009550 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 983917009551 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 983917009552 Clp amino terminal domain; Region: Clp_N; pfam02861 983917009553 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 983917009554 Walker A motif; other site 983917009555 ATP binding site [chemical binding]; other site 983917009556 Walker B motif; other site 983917009557 arginine finger; other site 983917009558 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 983917009559 Walker A motif; other site 983917009560 ATP binding site [chemical binding]; other site 983917009561 Walker B motif; other site 983917009562 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 983917009563 Uncharacterized conserved protein [Function unknown]; Region: COG2127 983917009564 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 983917009565 DNA-binding site [nucleotide binding]; DNA binding site 983917009566 RNA-binding motif; other site 983917009567 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 983917009568 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 983917009569 Ligand binding site; other site 983917009570 Putative Catalytic site; other site 983917009571 DXD motif; other site 983917009572 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 983917009573 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 983917009574 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 983917009575 PAS fold; Region: PAS; pfam00989 983917009576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917009577 putative active site [active] 983917009578 heme pocket [chemical binding]; other site 983917009579 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917009580 dimer interface [polypeptide binding]; other site 983917009581 phosphorylation site [posttranslational modification] 983917009582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917009583 Mg2+ binding site [ion binding]; other site 983917009584 G-X-G motif; other site 983917009585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917009586 active site 983917009587 phosphorylation site [posttranslational modification] 983917009588 intermolecular recognition site; other site 983917009589 dimerization interface [polypeptide binding]; other site 983917009590 two-component response regulator VirG; Provisional; Region: PRK13856 983917009591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917009592 active site 983917009593 phosphorylation site [posttranslational modification] 983917009594 intermolecular recognition site; other site 983917009595 dimerization interface [polypeptide binding]; other site 983917009596 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 983917009597 DNA binding site [nucleotide binding] 983917009598 isocitrate dehydrogenase; Validated; Region: PRK07362 983917009599 isocitrate dehydrogenase; Reviewed; Region: PRK07006 983917009600 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 983917009601 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 983917009602 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 983917009603 FeS/SAM binding site; other site 983917009604 HemN C-terminal domain; Region: HemN_C; pfam06969 983917009605 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 983917009606 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 983917009607 ligand binding site [chemical binding]; other site 983917009608 flexible hinge region; other site 983917009609 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 983917009610 putative switch regulator; other site 983917009611 non-specific DNA interactions [nucleotide binding]; other site 983917009612 DNA binding site [nucleotide binding] 983917009613 sequence specific DNA binding site [nucleotide binding]; other site 983917009614 putative cAMP binding site [chemical binding]; other site 983917009615 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 983917009616 4Fe-4S binding domain; Region: Fer4_5; pfam12801 983917009617 4Fe-4S binding domain; Region: Fer4; pfam00037 983917009618 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 983917009619 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 983917009620 Cytochrome c; Region: Cytochrom_C; pfam00034 983917009621 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 983917009622 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 983917009623 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 983917009624 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 983917009625 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 983917009626 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 983917009627 Low-spin heme binding site [chemical binding]; other site 983917009628 Putative water exit pathway; other site 983917009629 Binuclear center (active site) [active] 983917009630 Putative proton exit pathway; other site 983917009631 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 983917009632 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 983917009633 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 983917009634 metal-binding site [ion binding] 983917009635 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983917009636 Soluble P-type ATPase [General function prediction only]; Region: COG4087 983917009637 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 983917009638 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 983917009639 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 983917009640 generic binding surface II; other site 983917009641 generic binding surface I; other site 983917009642 superoxide dismutase; Provisional; Region: PRK10543 983917009643 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 983917009644 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 983917009645 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 983917009646 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 983917009647 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 983917009648 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 983917009649 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 983917009650 Uncharacterized conserved protein [Function unknown]; Region: COG2835 983917009651 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 983917009652 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 983917009653 Ligand binding site; other site 983917009654 oligomer interface; other site 983917009655 adenylate kinase; Reviewed; Region: adk; PRK00279 983917009656 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 983917009657 AMP-binding site [chemical binding]; other site 983917009658 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 983917009659 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 983917009660 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 983917009661 NAD binding site [chemical binding]; other site 983917009662 homodimer interface [polypeptide binding]; other site 983917009663 homotetramer interface [polypeptide binding]; other site 983917009664 active site 983917009665 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 983917009666 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 983917009667 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 983917009668 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917009669 Walker A/P-loop; other site 983917009670 ATP binding site [chemical binding]; other site 983917009671 Q-loop/lid; other site 983917009672 ABC transporter signature motif; other site 983917009673 Walker B; other site 983917009674 D-loop; other site 983917009675 H-loop/switch region; other site 983917009676 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917009677 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 983917009678 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917009679 Walker A/P-loop; other site 983917009680 ATP binding site [chemical binding]; other site 983917009681 Q-loop/lid; other site 983917009682 ABC transporter signature motif; other site 983917009683 Walker B; other site 983917009684 D-loop; other site 983917009685 H-loop/switch region; other site 983917009686 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917009687 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 983917009688 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 983917009689 dimer interface [polypeptide binding]; other site 983917009690 conserved gate region; other site 983917009691 putative PBP binding loops; other site 983917009692 ABC-ATPase subunit interface; other site 983917009693 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 983917009694 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 983917009695 dimer interface [polypeptide binding]; other site 983917009696 conserved gate region; other site 983917009697 putative PBP binding loops; other site 983917009698 ABC-ATPase subunit interface; other site 983917009699 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_18; cd08505 983917009700 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 983917009701 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 983917009702 dimer interface [polypeptide binding]; other site 983917009703 catalytic triad [active] 983917009704 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 983917009705 nucleoside/Zn binding site; other site 983917009706 dimer interface [polypeptide binding]; other site 983917009707 catalytic motif [active] 983917009708 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 983917009709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 983917009710 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 983917009711 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 983917009712 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 983917009713 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 983917009714 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 983917009715 PAAR motif; Region: PAAR_motif; pfam05488 983917009716 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 983917009717 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 983917009718 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 983917009719 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 983917009720 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917009721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917009722 ligand binding site [chemical binding]; other site 983917009723 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 983917009724 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 983917009725 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917009726 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 983917009727 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917009728 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917009729 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917009730 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 983917009731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917009732 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 983917009733 putative cation:proton antiport protein; Provisional; Region: PRK10669 983917009734 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 983917009735 TrkA-N domain; Region: TrkA_N; pfam02254 983917009736 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 983917009737 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 983917009738 substrate binding pocket [chemical binding]; other site 983917009739 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 983917009740 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917009741 putative ADP-binding pocket [chemical binding]; other site 983917009742 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 983917009743 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 983917009744 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 983917009745 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 983917009746 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 983917009747 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 983917009748 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 983917009749 active site 983917009750 metal binding site [ion binding]; metal-binding site 983917009751 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 983917009752 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 983917009753 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917009754 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 983917009755 putative DNA binding site [nucleotide binding]; other site 983917009756 putative Zn2+ binding site [ion binding]; other site 983917009757 AsnC family; Region: AsnC_trans_reg; pfam01037 983917009758 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 983917009759 thiamine pyrophosphate protein; Validated; Region: PRK08199 983917009760 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 983917009761 PYR/PP interface [polypeptide binding]; other site 983917009762 dimer interface [polypeptide binding]; other site 983917009763 TPP binding site [chemical binding]; other site 983917009764 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 983917009765 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 983917009766 TPP-binding site [chemical binding]; other site 983917009767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917009768 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 983917009769 putative substrate translocation pore; other site 983917009770 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 983917009771 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917009772 quinolinate synthetase; Provisional; Region: PRK09375 983917009773 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 983917009774 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 983917009775 dimerization interface [polypeptide binding]; other site 983917009776 active site 983917009777 Late competence development protein ComFB; Region: ComFB; pfam10719 983917009778 Cache domain; Region: Cache_1; pfam02743 983917009779 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 983917009780 dimerization interface [polypeptide binding]; other site 983917009781 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917009782 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917009783 dimer interface [polypeptide binding]; other site 983917009784 putative CheW interface [polypeptide binding]; other site 983917009785 L-aspartate oxidase; Provisional; Region: PRK09077 983917009786 L-aspartate oxidase; Provisional; Region: PRK06175 983917009787 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 983917009788 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 983917009789 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 983917009790 DctM-like transporters; Region: DctM; pfam06808 983917009791 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 983917009792 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 983917009793 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 983917009794 ATP-binding site [chemical binding]; other site 983917009795 Gluconate-6-phosphate binding site [chemical binding]; other site 983917009796 Transcriptional regulators [Transcription]; Region: PurR; COG1609 983917009797 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 983917009798 DNA binding site [nucleotide binding] 983917009799 domain linker motif; other site 983917009800 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 983917009801 putative ligand binding site [chemical binding]; other site 983917009802 putative dimerization interface [polypeptide binding]; other site 983917009803 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 983917009804 Clp amino terminal domain; Region: Clp_N; pfam02861 983917009805 Clp amino terminal domain; Region: Clp_N; pfam02861 983917009806 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 983917009807 Walker A motif; other site 983917009808 ATP binding site [chemical binding]; other site 983917009809 Walker B motif; other site 983917009810 arginine finger; other site 983917009811 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 983917009812 Walker A motif; other site 983917009813 ATP binding site [chemical binding]; other site 983917009814 Walker B motif; other site 983917009815 arginine finger; other site 983917009816 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 983917009817 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 983917009818 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 983917009819 MoaD interaction [polypeptide binding]; other site 983917009820 active site residues [active] 983917009821 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 983917009822 MoaE interaction surface [polypeptide binding]; other site 983917009823 MoeB interaction surface [polypeptide binding]; other site 983917009824 thiocarboxylated glycine; other site 983917009825 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 983917009826 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 983917009827 dimer interface [polypeptide binding]; other site 983917009828 putative functional site; other site 983917009829 putative MPT binding site; other site 983917009830 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 983917009831 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 983917009832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917009833 catalytic residue [active] 983917009834 homoserine dehydrogenase; Provisional; Region: PRK06349 983917009835 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 983917009836 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 983917009837 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 983917009838 aminotransferase AlaT; Validated; Region: PRK09265 983917009839 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 983917009840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917009841 homodimer interface [polypeptide binding]; other site 983917009842 catalytic residue [active] 983917009843 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; cl00182 983917009844 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 983917009845 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 983917009846 catalytic triad [active] 983917009847 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 983917009848 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 983917009849 putative active site [active] 983917009850 PhoH-like protein; Region: PhoH; pfam02562 983917009851 DNA ligase; Provisional; Region: PRK09125 983917009852 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 983917009853 DNA binding site [nucleotide binding] 983917009854 active site 983917009855 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 983917009856 DNA binding site [nucleotide binding] 983917009857 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 983917009858 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917009859 acyl-activating enzyme (AAE) consensus motif; other site 983917009860 AMP binding site [chemical binding]; other site 983917009861 active site 983917009862 CoA binding site [chemical binding]; other site 983917009863 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 983917009864 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 983917009865 NADP binding site [chemical binding]; other site 983917009866 dimer interface [polypeptide binding]; other site 983917009867 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 983917009868 NlpC/P60 family; Region: NLPC_P60; pfam00877 983917009869 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 983917009870 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 983917009871 FeS/SAM binding site; other site 983917009872 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 983917009873 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 983917009874 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 983917009875 GTP binding site; other site 983917009876 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 983917009877 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 983917009878 dimer interface [polypeptide binding]; other site 983917009879 putative functional site; other site 983917009880 putative MPT binding site; other site 983917009881 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983917009882 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917009883 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917009884 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 983917009885 RNA/DNA hybrid binding site [nucleotide binding]; other site 983917009886 active site 983917009887 Methyltransferase domain; Region: Methyltransf_11; pfam08241 983917009888 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983917009889 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 983917009890 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 983917009891 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917009892 catalytic residue [active] 983917009893 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917009894 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 983917009895 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 983917009896 dimerization interface [polypeptide binding]; other site 983917009897 NAD binding site [chemical binding]; other site 983917009898 ligand binding site [chemical binding]; other site 983917009899 catalytic site [active] 983917009900 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917009901 active site 983917009902 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 983917009903 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 983917009904 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 983917009905 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 983917009906 RES domain; Region: RES; pfam08808 983917009907 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 983917009908 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 983917009909 DNA binding residues [nucleotide binding] 983917009910 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 983917009911 putative dimer interface [polypeptide binding]; other site 983917009912 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 983917009913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917009914 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983917009915 NAD(P) binding site [chemical binding]; other site 983917009916 active site 983917009917 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 983917009918 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 983917009919 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 983917009920 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983917009921 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983917009922 active site 983917009923 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 983917009924 substrate binding site [chemical binding]; other site 983917009925 oxyanion hole (OAH) forming residues; other site 983917009926 trimer interface [polypeptide binding]; other site 983917009927 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 983917009928 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917009929 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917009930 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 983917009931 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 983917009932 carboxyltransferase (CT) interaction site; other site 983917009933 biotinylation site [posttranslational modification]; other site 983917009934 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 983917009935 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 983917009936 CoenzymeA binding site [chemical binding]; other site 983917009937 subunit interaction site [polypeptide binding]; other site 983917009938 PHB binding site; other site 983917009939 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917009940 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 983917009941 protein binding site [polypeptide binding]; other site 983917009942 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 983917009943 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 983917009944 motif II; other site 983917009945 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 983917009946 Peptidase family U32; Region: Peptidase_U32; pfam01136 983917009947 Collagenase; Region: DUF3656; pfam12392 983917009948 recombination protein RecR; Reviewed; Region: recR; PRK00076 983917009949 RecR protein; Region: RecR; pfam02132 983917009950 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 983917009951 putative active site [active] 983917009952 putative metal-binding site [ion binding]; other site 983917009953 tetramer interface [polypeptide binding]; other site 983917009954 hypothetical protein; Validated; Region: PRK00153 983917009955 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 983917009956 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 983917009957 Walker A motif; other site 983917009958 ATP binding site [chemical binding]; other site 983917009959 DNA polymerase III subunit delta'; Validated; Region: PRK08485 983917009960 Walker B motif; other site 983917009961 arginine finger; other site 983917009962 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 983917009963 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 983917009964 ATP binding site [chemical binding]; other site 983917009965 dimerization interface [polypeptide binding]; other site 983917009966 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 983917009967 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983917009968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917009969 active site 983917009970 phosphorylation site [posttranslational modification] 983917009971 intermolecular recognition site; other site 983917009972 dimerization interface [polypeptide binding]; other site 983917009973 LytTr DNA-binding domain; Region: LytTR; smart00850 983917009974 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917009975 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917009976 ATP binding site [chemical binding]; other site 983917009977 Mg2+ binding site [ion binding]; other site 983917009978 G-X-G motif; other site 983917009979 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983917009980 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 983917009981 putative active site [active] 983917009982 putative metal binding site [ion binding]; other site 983917009983 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983917009984 Catalytic domain of Protein Kinases; Region: PKc; cd00180 983917009985 active site 983917009986 substrate binding site [chemical binding]; other site 983917009987 ATP binding site [chemical binding]; other site 983917009988 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 983917009989 activation loop (A-loop); other site 983917009990 HDOD domain; Region: HDOD; pfam08668 983917009991 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 983917009992 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 983917009993 active site 983917009994 ATP binding site [chemical binding]; other site 983917009995 substrate binding site [chemical binding]; other site 983917009996 HDOD domain; Region: HDOD; pfam08668 983917009997 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 983917009998 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 983917009999 catalytic residues [active] 983917010000 transcription termination factor Rho; Provisional; Region: rho; PRK09376 983917010001 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 983917010002 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 983917010003 RNA binding site [nucleotide binding]; other site 983917010004 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 983917010005 multimer interface [polypeptide binding]; other site 983917010006 Walker A motif; other site 983917010007 ATP binding site [chemical binding]; other site 983917010008 Walker B motif; other site 983917010009 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 983917010010 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917010011 PAS domain; Region: PAS; smart00091 983917010012 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917010013 dimer interface [polypeptide binding]; other site 983917010014 phosphorylation site [posttranslational modification] 983917010015 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917010016 ATP binding site [chemical binding]; other site 983917010017 Mg2+ binding site [ion binding]; other site 983917010018 G-X-G motif; other site 983917010019 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 983917010020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917010021 active site 983917010022 phosphorylation site [posttranslational modification] 983917010023 intermolecular recognition site; other site 983917010024 dimerization interface [polypeptide binding]; other site 983917010025 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 983917010026 DNA binding site [nucleotide binding] 983917010027 transcriptional regulator PhoU; Provisional; Region: PRK11115 983917010028 PhoU domain; Region: PhoU; pfam01895 983917010029 PhoU domain; Region: PhoU; pfam01895 983917010030 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 983917010031 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 983917010032 Walker A/P-loop; other site 983917010033 ATP binding site [chemical binding]; other site 983917010034 Q-loop/lid; other site 983917010035 ABC transporter signature motif; other site 983917010036 Walker B; other site 983917010037 D-loop; other site 983917010038 H-loop/switch region; other site 983917010039 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 983917010040 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 983917010041 dimer interface [polypeptide binding]; other site 983917010042 conserved gate region; other site 983917010043 putative PBP binding loops; other site 983917010044 ABC-ATPase subunit interface; other site 983917010045 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 983917010046 dimer interface [polypeptide binding]; other site 983917010047 conserved gate region; other site 983917010048 putative PBP binding loops; other site 983917010049 ABC-ATPase subunit interface; other site 983917010050 PBP superfamily domain; Region: PBP_like_2; cl17296 983917010051 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 983917010052 Fasciclin domain; Region: Fasciclin; pfam02469 983917010053 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 983917010054 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 983917010055 active site 983917010056 substrate binding site [chemical binding]; other site 983917010057 metal binding site [ion binding]; metal-binding site 983917010058 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 983917010059 dihydropteroate synthase; Region: DHPS; TIGR01496 983917010060 substrate binding pocket [chemical binding]; other site 983917010061 dimer interface [polypeptide binding]; other site 983917010062 inhibitor binding site; inhibition site 983917010063 FtsH Extracellular; Region: FtsH_ext; pfam06480 983917010064 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 983917010065 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 983917010066 Walker A motif; other site 983917010067 ATP binding site [chemical binding]; other site 983917010068 Walker B motif; other site 983917010069 arginine finger; other site 983917010070 Peptidase family M41; Region: Peptidase_M41; pfam01434 983917010071 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 983917010072 FtsJ-like methyltransferase; Region: FtsJ; cl17430 983917010073 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 983917010074 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 983917010075 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 983917010076 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 983917010077 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 983917010078 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 983917010079 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917010080 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 983917010081 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 983917010082 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917010083 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917010084 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 983917010085 IMP binding site; other site 983917010086 dimer interface [polypeptide binding]; other site 983917010087 interdomain contacts; other site 983917010088 partial ornithine binding site; other site 983917010089 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 983917010090 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 983917010091 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 983917010092 catalytic site [active] 983917010093 subunit interface [polypeptide binding]; other site 983917010094 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 983917010095 YccA-like proteins; Region: YccA_like; cd10433 983917010096 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 983917010097 TRAM domain; Region: TRAM; pfam01938 983917010098 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 983917010099 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 983917010100 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 983917010101 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917010102 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 983917010103 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 983917010104 DNA binding residues [nucleotide binding] 983917010105 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 983917010106 Peptidase family M23; Region: Peptidase_M23; pfam01551 983917010107 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 983917010108 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 983917010109 S-adenosylmethionine binding site [chemical binding]; other site 983917010110 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 983917010111 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 983917010112 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 983917010113 NAD(P) binding site [chemical binding]; other site 983917010114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917010115 active site 983917010116 phosphorylation site [posttranslational modification] 983917010117 intermolecular recognition site; other site 983917010118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 983917010119 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917010120 ATP binding site [chemical binding]; other site 983917010121 Mg2+ binding site [ion binding]; other site 983917010122 G-X-G motif; other site 983917010123 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 983917010124 PUCC protein; Region: PUCC; pfam03209 983917010125 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 983917010126 UbiA prenyltransferase family; Region: UbiA; pfam01040 983917010127 phytoene desaturase; Region: crtI_fam; TIGR02734 983917010128 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917010129 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 983917010130 PAS domain; Region: PAS_8; pfam13188 983917010131 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 983917010132 putative active site [active] 983917010133 heme pocket [chemical binding]; other site 983917010134 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917010135 B12 binding domain; Region: B12-binding_2; cl03653 983917010136 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; cd02065 983917010137 B12 binding site [chemical binding]; other site 983917010138 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 983917010139 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 983917010140 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 983917010141 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 983917010142 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 983917010143 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 983917010144 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 983917010145 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 983917010146 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 983917010147 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 983917010148 P-loop; other site 983917010149 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 983917010150 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 983917010151 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 983917010152 S-adenosylmethionine binding site [chemical binding]; other site 983917010153 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 983917010154 PUCC protein; Region: PUCC; pfam03209 983917010155 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 983917010156 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 983917010157 subunit C interaction residues; other site 983917010158 subunit M interaction residues [polypeptide binding]; other site 983917010159 subunit L interaction residues [polypeptide binding]; other site 983917010160 putative proton transfer pathway, P1; other site 983917010161 putative proton transfer pathway, P2; other site 983917010162 Bacterial PH domain; Region: DUF304; pfam03703 983917010163 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 983917010164 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 983917010165 diiron binding motif [ion binding]; other site 983917010166 Protein of unknown function (DUF3623); Region: DUF3623; pfam12291 983917010167 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 983917010168 active site lid residues [active] 983917010169 substrate binding pocket [chemical binding]; other site 983917010170 catalytic residues [active] 983917010171 substrate-Mg2+ binding site; other site 983917010172 aspartate-rich region 1; other site 983917010173 aspartate-rich region 2; other site 983917010174 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 983917010175 phytoene desaturase; Region: crtI_fam; TIGR02734 983917010176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917010177 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 983917010178 subunit interface [polypeptide binding]; other site 983917010179 Heme binding sites [chemical binding]; other site 983917010180 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 983917010181 subunit H interface; other site 983917010182 subunit L interface; other site 983917010183 bacteriopheophytin binding site; other site 983917010184 carotenoid binding site; other site 983917010185 bacteriochlorophyll binding site; other site 983917010186 cytochrome C interface; other site 983917010187 quinone binding site; other site 983917010188 Fe binding site [ion binding]; other site 983917010189 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 983917010190 subunit M interface; other site 983917010191 subunit H interface; other site 983917010192 quinone binding site; other site 983917010193 bacteriopheophytin binding site; other site 983917010194 bacteriochlorophyll binding site; other site 983917010195 cytochrome C subunit interface; other site 983917010196 Fe binding site [ion binding]; other site 983917010197 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 983917010198 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 983917010199 Chlide_reductase_Z : Z subunit of chlorophyllide (chlide) reductase (BchZ). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Z; cd01982 983917010200 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 983917010201 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 983917010202 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 983917010203 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 983917010204 P-loop; other site 983917010205 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 983917010206 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 983917010207 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 983917010208 putative NAD(P) binding site [chemical binding]; other site 983917010209 Methyltransferase domain; Region: Methyltransf_23; pfam13489 983917010210 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 983917010211 S-adenosylmethionine binding site [chemical binding]; other site 983917010212 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 983917010213 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 983917010214 substrate binding pocket [chemical binding]; other site 983917010215 chain length determination region; other site 983917010216 substrate-Mg2+ binding site; other site 983917010217 catalytic residues [active] 983917010218 aspartate-rich region 1; other site 983917010219 active site lid residues [active] 983917010220 aspartate-rich region 2; other site 983917010221 Cytochrome c; Region: Cytochrom_C; cl11414 983917010222 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 983917010223 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 983917010224 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 983917010225 4Fe-4S binding domain; Region: Fer4; pfam00037 983917010226 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 983917010227 HemN C-terminal domain; Region: HemN_C; pfam06969 983917010228 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 983917010229 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 983917010230 S-adenosylmethionine binding site [chemical binding]; other site 983917010231 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 983917010232 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 983917010233 putative coenzyme Q binding site [chemical binding]; other site 983917010234 Dienelactone hydrolase family; Region: DLH; pfam01738 983917010235 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 983917010236 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 983917010237 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 983917010238 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 983917010239 catalytic core [active] 983917010240 potential frameshift: common BLAST hit: gi|171060271|ref|YP_001792620.1| polyphosphate kinase 983917010241 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917010242 putative active site [active] 983917010243 catalytic site [active] 983917010244 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917010245 putative active site [active] 983917010246 catalytic site [active] 983917010247 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 983917010248 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 983917010249 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 983917010250 DNA polymerase I; Provisional; Region: PRK05755 983917010251 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 983917010252 active site 983917010253 metal binding site 1 [ion binding]; metal-binding site 983917010254 putative 5' ssDNA interaction site; other site 983917010255 metal binding site 3; metal-binding site 983917010256 metal binding site 2 [ion binding]; metal-binding site 983917010257 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 983917010258 putative DNA binding site [nucleotide binding]; other site 983917010259 putative metal binding site [ion binding]; other site 983917010260 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 983917010261 active site 983917010262 catalytic site [active] 983917010263 substrate binding site [chemical binding]; other site 983917010264 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 983917010265 active site 983917010266 DNA binding site [nucleotide binding] 983917010267 catalytic site [active] 983917010268 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 983917010269 Homoserine Kinase, type II. Homoserine kinase 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: HomoserineK_II; cd05153 983917010270 Phosphotransferase enzyme family; Region: APH; pfam01636 983917010271 putative active site [active] 983917010272 putative substrate binding site [chemical binding]; other site 983917010273 ATP binding site [chemical binding]; other site 983917010274 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 983917010275 Part of AAA domain; Region: AAA_19; pfam13245 983917010276 Family description; Region: UvrD_C_2; pfam13538 983917010277 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917010278 PAS fold; Region: PAS_3; pfam08447 983917010279 putative active site [active] 983917010280 heme pocket [chemical binding]; other site 983917010281 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917010282 PAS domain; Region: PAS_9; pfam13426 983917010283 putative active site [active] 983917010284 heme pocket [chemical binding]; other site 983917010285 PAS fold; Region: PAS_4; pfam08448 983917010286 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917010287 putative active site [active] 983917010288 heme pocket [chemical binding]; other site 983917010289 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917010290 dimer interface [polypeptide binding]; other site 983917010291 phosphorylation site [posttranslational modification] 983917010292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917010293 ATP binding site [chemical binding]; other site 983917010294 Mg2+ binding site [ion binding]; other site 983917010295 G-X-G motif; other site 983917010296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917010297 active site 983917010298 phosphorylation site [posttranslational modification] 983917010299 intermolecular recognition site; other site 983917010300 dimerization interface [polypeptide binding]; other site 983917010301 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 983917010302 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 983917010303 active site 983917010304 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917010305 binding surface 983917010306 TPR motif; other site 983917010307 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917010308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917010309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917010310 metal binding site [ion binding]; metal-binding site 983917010311 active site 983917010312 I-site; other site 983917010313 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983917010314 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 983917010315 protein binding site [polypeptide binding]; other site 983917010316 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 983917010317 Catalytic dyad [active] 983917010318 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 983917010319 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917010320 active site 983917010321 HIGH motif; other site 983917010322 nucleotide binding site [chemical binding]; other site 983917010323 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 983917010324 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 983917010325 active site 983917010326 KMSKS motif; other site 983917010327 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 983917010328 tRNA binding surface [nucleotide binding]; other site 983917010329 anticodon binding site; other site 983917010330 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 983917010331 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 983917010332 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 983917010333 NAD binding site [chemical binding]; other site 983917010334 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 983917010335 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 983917010336 active site 983917010337 tetramer interface; other site 983917010338 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 983917010339 CPxP motif; other site 983917010340 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 983917010341 nudix motif; other site 983917010342 cysteine synthase B; Region: cysM; TIGR01138 983917010343 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 983917010344 dimer interface [polypeptide binding]; other site 983917010345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917010346 catalytic residue [active] 983917010347 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 983917010348 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 983917010349 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983917010350 putative NAD(P) binding site [chemical binding]; other site 983917010351 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 983917010352 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 983917010353 catalytic loop [active] 983917010354 iron binding site [ion binding]; other site 983917010355 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 983917010356 FAD binding pocket [chemical binding]; other site 983917010357 FAD binding motif [chemical binding]; other site 983917010358 phosphate binding motif [ion binding]; other site 983917010359 beta-alpha-beta structure motif; other site 983917010360 NAD binding pocket [chemical binding]; other site 983917010361 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917010362 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 983917010363 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 983917010364 Walker A/P-loop; other site 983917010365 ATP binding site [chemical binding]; other site 983917010366 Q-loop/lid; other site 983917010367 ABC transporter signature motif; other site 983917010368 Walker B; other site 983917010369 D-loop; other site 983917010370 H-loop/switch region; other site 983917010371 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 983917010372 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 983917010373 Walker A/P-loop; other site 983917010374 ATP binding site [chemical binding]; other site 983917010375 Q-loop/lid; other site 983917010376 ABC transporter signature motif; other site 983917010377 Walker B; other site 983917010378 D-loop; other site 983917010379 H-loop/switch region; other site 983917010380 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 983917010381 TM-ABC transporter signature motif; other site 983917010382 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917010383 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 983917010384 TM-ABC transporter signature motif; other site 983917010385 recombination factor protein RarA; Reviewed; Region: PRK13342 983917010386 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 983917010387 Walker A motif; other site 983917010388 ATP binding site [chemical binding]; other site 983917010389 Walker B motif; other site 983917010390 arginine finger; other site 983917010391 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 983917010392 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 983917010393 putative CheA interaction surface; other site 983917010394 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 983917010395 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 983917010396 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 983917010397 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 983917010398 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 983917010399 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917010400 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 983917010401 ligand binding site [chemical binding]; other site 983917010402 flexible hinge region; other site 983917010403 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 983917010404 putative switch regulator; other site 983917010405 non-specific DNA interactions [nucleotide binding]; other site 983917010406 DNA binding site [nucleotide binding] 983917010407 sequence specific DNA binding site [nucleotide binding]; other site 983917010408 putative cAMP binding site [chemical binding]; other site 983917010409 thioredoxin reductase; Provisional; Region: PRK10262 983917010410 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 983917010411 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 983917010412 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 983917010413 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 983917010414 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 983917010415 Fatty acid desaturase; Region: FA_desaturase; pfam00487 983917010416 Di-iron ligands [ion binding]; other site 983917010417 Transposase; Region: DDE_Tnp_ISL3; pfam01610 983917010418 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 983917010419 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 983917010420 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 983917010421 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 983917010422 active site 983917010423 substrate binding site [chemical binding]; other site 983917010424 cosubstrate binding site; other site 983917010425 catalytic site [active] 983917010426 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 983917010427 active site 983917010428 HIGH motif; other site 983917010429 dimer interface [polypeptide binding]; other site 983917010430 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917010431 active site 983917010432 KMSKS motif; other site 983917010433 putative hydrolase; Provisional; Region: PRK11460 983917010434 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 983917010435 DNA Polymerase Y-family; Region: PolY_like; cd03468 983917010436 active site 983917010437 DNA binding site [nucleotide binding] 983917010438 SnoaL-like domain; Region: SnoaL_2; pfam12680 983917010439 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 983917010440 Uncharacterized conserved protein [Function unknown]; Region: COG4544 983917010441 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 983917010442 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 983917010443 hypothetical protein; Provisional; Region: PRK01842 983917010444 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 983917010445 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 983917010446 active site 983917010447 catalytic tetrad [active] 983917010448 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917010449 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917010450 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917010451 dimer interface [polypeptide binding]; other site 983917010452 putative CheW interface [polypeptide binding]; other site 983917010453 BCCT family transporter; Region: BCCT; pfam02028 983917010454 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917010455 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 983917010456 dimerization interface [polypeptide binding]; other site 983917010457 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917010458 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917010459 dimer interface [polypeptide binding]; other site 983917010460 putative CheW interface [polypeptide binding]; other site 983917010461 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 983917010462 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 983917010463 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 983917010464 TolR protein; Region: tolR; TIGR02801 983917010465 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 983917010466 TolR protein; Region: tolR; TIGR02801 983917010467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917010468 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917010469 PAS domain; Region: PAS_9; pfam13426 983917010470 putative active site [active] 983917010471 heme pocket [chemical binding]; other site 983917010472 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 983917010473 dimerization interface [polypeptide binding]; other site 983917010474 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917010475 dimer interface [polypeptide binding]; other site 983917010476 putative CheW interface [polypeptide binding]; other site 983917010477 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983917010478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917010479 NAD(P) binding site [chemical binding]; other site 983917010480 active site 983917010481 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917010482 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 983917010483 dimer interface [polypeptide binding]; other site 983917010484 active site 983917010485 metal binding site [ion binding]; metal-binding site 983917010486 glutathione binding site [chemical binding]; other site 983917010487 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 983917010488 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 983917010489 active site 983917010490 intersubunit interface [polypeptide binding]; other site 983917010491 catalytic residue [active] 983917010492 phosphogluconate dehydratase; Validated; Region: PRK09054 983917010493 6-phosphogluconate dehydratase; Region: edd; TIGR01196 983917010494 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 983917010495 putative active site pocket [active] 983917010496 dimerization interface [polypeptide binding]; other site 983917010497 putative catalytic residue [active] 983917010498 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 983917010499 Ligand binding site; other site 983917010500 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 983917010501 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 983917010502 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 983917010503 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 983917010504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 983917010505 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 983917010506 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 983917010507 DNA binding residues [nucleotide binding] 983917010508 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917010509 dimerization interface [polypeptide binding]; other site 983917010510 Hemerythrin-like domain of FBXL5-like proteins; Region: Hr_FBXL5; cd12109 983917010511 Fe binding site [ion binding]; other site 983917010512 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 983917010513 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983917010514 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 983917010515 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 983917010516 putative active site [active] 983917010517 Zn binding site [ion binding]; other site 983917010518 MoxR-like ATPases [General function prediction only]; Region: COG0714 983917010519 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 983917010520 Walker A motif; other site 983917010521 ATP binding site [chemical binding]; other site 983917010522 Walker B motif; other site 983917010523 arginine finger; other site 983917010524 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 983917010525 Protein of unknown function DUF58; Region: DUF58; pfam01882 983917010526 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 983917010527 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 983917010528 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 983917010529 Transglycosylase SLT domain; Region: SLT_2; pfam13406 983917010530 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 983917010531 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917010532 catalytic residue [active] 983917010533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 983917010534 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 983917010535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 983917010536 Uncharacterized conserved protein [Function unknown]; Region: COG2308 983917010537 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 983917010538 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 983917010539 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 983917010540 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 983917010541 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 983917010542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 983917010543 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 983917010544 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 983917010545 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 983917010546 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 983917010547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 983917010548 TPR repeat; Region: TPR_11; pfam13414 983917010549 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917010550 binding surface 983917010551 TPR motif; other site 983917010552 TPR repeat; Region: TPR_11; pfam13414 983917010553 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 983917010554 Competence protein; Region: Competence; pfam03772 983917010555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983917010556 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 983917010557 homotrimer interaction site [polypeptide binding]; other site 983917010558 putative active site [active] 983917010559 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 983917010560 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 983917010561 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 983917010562 CAP-like domain; other site 983917010563 active site 983917010564 primary dimer interface [polypeptide binding]; other site 983917010565 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 983917010566 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917010567 catalytic residue [active] 983917010568 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 983917010569 active site 983917010570 catalytic residues [active] 983917010571 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 983917010572 putative integrin binding motif; other site 983917010573 PA/protease domain interface [polypeptide binding]; other site 983917010574 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 983917010575 catalytic residues [active] 983917010576 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 983917010577 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917010578 ATP binding site [chemical binding]; other site 983917010579 Mg2+ binding site [ion binding]; other site 983917010580 G-X-G motif; other site 983917010581 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 983917010582 anchoring element; other site 983917010583 dimer interface [polypeptide binding]; other site 983917010584 ATP binding site [chemical binding]; other site 983917010585 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 983917010586 active site 983917010587 metal binding site [ion binding]; metal-binding site 983917010588 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 983917010589 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 983917010590 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 983917010591 hydroxyglutarate oxidase; Provisional; Region: PRK11728 983917010592 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 983917010593 putative substrate translocation pore; other site 983917010594 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917010595 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 983917010596 S-adenosylmethionine binding site [chemical binding]; other site 983917010597 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 983917010598 dihydrodipicolinate synthase; Region: dapA; TIGR00674 983917010599 dimer interface [polypeptide binding]; other site 983917010600 active site 983917010601 catalytic residue [active] 983917010602 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 983917010603 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 983917010604 Uncharacterized conserved protein [Function unknown]; Region: COG2850 983917010605 Cupin-like domain; Region: Cupin_8; pfam13621 983917010606 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 983917010607 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 983917010608 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 983917010609 trimer interface [polypeptide binding]; other site 983917010610 active site 983917010611 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 983917010612 Flavoprotein; Region: Flavoprotein; pfam02441 983917010613 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 983917010614 SEC-C motif; Region: SEC-C; pfam02810 983917010615 putative acetyltransferase YhhY; Provisional; Region: PRK10140 983917010616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917010617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917010618 Coenzyme A binding pocket [chemical binding]; other site 983917010619 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 983917010620 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 983917010621 motif 1; other site 983917010622 active site 983917010623 motif 2; other site 983917010624 motif 3; other site 983917010625 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 983917010626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 983917010627 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 983917010628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917010629 DNA-binding site [nucleotide binding]; DNA binding site 983917010630 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 983917010631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917010632 homodimer interface [polypeptide binding]; other site 983917010633 catalytic residue [active] 983917010634 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 983917010635 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 983917010636 inhibitor-cofactor binding pocket; inhibition site 983917010637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917010638 catalytic residue [active] 983917010639 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 983917010640 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 983917010641 Walker A/P-loop; other site 983917010642 ATP binding site [chemical binding]; other site 983917010643 Q-loop/lid; other site 983917010644 ABC transporter signature motif; other site 983917010645 Walker B; other site 983917010646 D-loop; other site 983917010647 H-loop/switch region; other site 983917010648 TOBE domain; Region: TOBE_2; pfam08402 983917010649 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 983917010650 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917010651 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 983917010652 dimer interface [polypeptide binding]; other site 983917010653 conserved gate region; other site 983917010654 putative PBP binding loops; other site 983917010655 ABC-ATPase subunit interface; other site 983917010656 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 983917010657 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 983917010658 dimer interface [polypeptide binding]; other site 983917010659 conserved gate region; other site 983917010660 putative PBP binding loops; other site 983917010661 ABC-ATPase subunit interface; other site 983917010662 succinic semialdehyde dehydrogenase; Region: PLN02278 983917010663 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 983917010664 tetramerization interface [polypeptide binding]; other site 983917010665 NAD(P) binding site [chemical binding]; other site 983917010666 catalytic residues [active] 983917010667 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917010668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917010669 metal binding site [ion binding]; metal-binding site 983917010670 active site 983917010671 I-site; other site 983917010672 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 983917010673 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 983917010674 trimer interface [polypeptide binding]; other site 983917010675 eyelet of channel; other site 983917010676 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 983917010677 S-adenosylmethionine binding site [chemical binding]; other site 983917010678 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 983917010679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917010680 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917010681 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 983917010682 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 983917010683 S-adenosylmethionine binding site [chemical binding]; other site 983917010684 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 983917010685 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 983917010686 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 983917010687 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 983917010688 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 983917010689 active site 983917010690 substrate binding site [chemical binding]; other site 983917010691 metal binding site [ion binding]; metal-binding site 983917010692 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 983917010693 transmembrane helices; other site 983917010694 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 983917010695 TrkA-C domain; Region: TrkA_C; pfam02080 983917010696 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 983917010697 TrkA-C domain; Region: TrkA_C; pfam02080 983917010698 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 983917010699 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 983917010700 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917010701 AlkA N-terminal domain; Region: AlkA_N; pfam06029 983917010702 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 983917010703 DNA binding site [nucleotide binding] 983917010704 active site 983917010705 EamA-like transporter family; Region: EamA; pfam00892 983917010706 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983917010707 EamA-like transporter family; Region: EamA; pfam00892 983917010708 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 983917010709 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 983917010710 multidrug efflux protein; Reviewed; Region: PRK01766 983917010711 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 983917010712 cation binding site [ion binding]; other site 983917010713 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 983917010714 dimerization interface [polypeptide binding]; other site 983917010715 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917010716 dimer interface [polypeptide binding]; other site 983917010717 phosphorylation site [posttranslational modification] 983917010718 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917010719 ATP binding site [chemical binding]; other site 983917010720 Mg2+ binding site [ion binding]; other site 983917010721 G-X-G motif; other site 983917010722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917010723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917010724 active site 983917010725 phosphorylation site [posttranslational modification] 983917010726 intermolecular recognition site; other site 983917010727 dimerization interface [polypeptide binding]; other site 983917010728 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 983917010729 DNA binding site [nucleotide binding] 983917010730 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 983917010731 dimer interface [polypeptide binding]; other site 983917010732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 983917010733 AAA domain; Region: AAA_33; pfam13671 983917010734 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 983917010735 active site 983917010736 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 983917010737 Ligand Binding Site [chemical binding]; other site 983917010738 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 983917010739 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 983917010740 FeS/SAM binding site; other site 983917010741 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 983917010742 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 983917010743 (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 983917010744 dimer interaction site [polypeptide binding]; other site 983917010745 substrate-binding tunnel; other site 983917010746 active site 983917010747 catalytic site [active] 983917010748 substrate binding site [chemical binding]; other site 983917010749 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 983917010750 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 983917010751 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 983917010752 dimer interface [polypeptide binding]; other site 983917010753 active site 983917010754 heme binding site [chemical binding]; other site 983917010755 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 983917010756 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 983917010757 seryl-tRNA synthetase; Provisional; Region: PRK05431 983917010758 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 983917010759 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 983917010760 dimer interface [polypeptide binding]; other site 983917010761 active site 983917010762 motif 1; other site 983917010763 motif 2; other site 983917010764 motif 3; other site 983917010765 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 983917010766 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 983917010767 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 983917010768 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 983917010769 hypothetical protein; Reviewed; Region: PRK00024 983917010770 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 983917010771 MPN+ (JAMM) motif; other site 983917010772 Zinc-binding site [ion binding]; other site 983917010773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 983917010774 Smr domain; Region: Smr; pfam01713 983917010775 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 983917010776 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; cl00279 983917010777 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 983917010778 DNA binding residues [nucleotide binding] 983917010779 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 983917010780 Catalytic domain of Protein Kinases; Region: PKc; cd00180 983917010781 active site 983917010782 ATP binding site [chemical binding]; other site 983917010783 substrate binding site [chemical binding]; other site 983917010784 activation loop (A-loop); other site 983917010785 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917010786 TPR motif; other site 983917010787 binding surface 983917010788 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917010789 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917010790 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 983917010791 binding surface 983917010792 TPR motif; other site 983917010793 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917010794 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 983917010795 apolar tunnel; other site 983917010796 heme binding site [chemical binding]; other site 983917010797 dimerization interface [polypeptide binding]; other site 983917010798 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 983917010799 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 983917010800 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 983917010801 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917010802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917010803 metal binding site [ion binding]; metal-binding site 983917010804 active site 983917010805 I-site; other site 983917010806 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 983917010807 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 983917010808 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 983917010809 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 983917010810 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 983917010811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917010812 active site 983917010813 phosphorylation site [posttranslational modification] 983917010814 intermolecular recognition site; other site 983917010815 dimerization interface [polypeptide binding]; other site 983917010816 CheB methylesterase; Region: CheB_methylest; pfam01339 983917010817 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983917010818 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 983917010819 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 983917010820 FeS/SAM binding site; other site 983917010821 HemN C-terminal domain; Region: HemN_C; pfam06969 983917010822 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 983917010823 active site 983917010824 dimerization interface [polypeptide binding]; other site 983917010825 ribonuclease PH; Reviewed; Region: rph; PRK00173 983917010826 Ribonuclease PH; Region: RNase_PH_bact; cd11362 983917010827 hexamer interface [polypeptide binding]; other site 983917010828 active site 983917010829 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 983917010830 Protein phosphatase 2C; Region: PP2C; pfam00481 983917010831 active site 983917010832 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 983917010833 Catalytic domain of Protein Kinases; Region: PKc; cd00180 983917010834 active site 983917010835 ATP binding site [chemical binding]; other site 983917010836 substrate binding site [chemical binding]; other site 983917010837 activation loop (A-loop); other site 983917010838 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 983917010839 hypothetical protein; Provisional; Region: PRK11820 983917010840 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 983917010841 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 983917010842 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 983917010843 active site 983917010844 catalytic triad [active] 983917010845 oxyanion hole [active] 983917010846 D-lactate dehydrogenase; Provisional; Region: PRK11183 983917010847 FAD binding domain; Region: FAD_binding_4; pfam01565 983917010848 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 983917010849 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 983917010850 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 983917010851 phosphate binding site [ion binding]; other site 983917010852 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 983917010853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917010854 DNA-binding site [nucleotide binding]; DNA binding site 983917010855 FCD domain; Region: FCD; pfam07729 983917010856 L-lactate permease; Region: Lactate_perm; cl00701 983917010857 glycolate transporter; Provisional; Region: PRK09695 983917010858 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 983917010859 ThiC-associated domain; Region: ThiC-associated; pfam13667 983917010860 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 983917010861 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 983917010862 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 983917010863 Peptidase family M23; Region: Peptidase_M23; pfam01551 983917010864 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 983917010865 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 983917010866 ligand binding site [chemical binding]; other site 983917010867 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 983917010868 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983917010869 NAD(P) binding site [chemical binding]; other site 983917010870 catalytic residues [active] 983917010871 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 983917010872 GAF domain; Region: GAF; pfam01590 983917010873 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 983917010874 Walker A motif; other site 983917010875 ATP binding site [chemical binding]; other site 983917010876 Walker B motif; other site 983917010877 arginine finger; other site 983917010878 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917010879 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 983917010880 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 983917010881 catalytic site [active] 983917010882 G-X2-G-X-G-K; other site 983917010883 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 983917010884 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 983917010885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917010886 Zn2+ binding site [ion binding]; other site 983917010887 Mg2+ binding site [ion binding]; other site 983917010888 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 983917010889 synthetase active site [active] 983917010890 NTP binding site [chemical binding]; other site 983917010891 metal binding site [ion binding]; metal-binding site 983917010892 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 983917010893 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 983917010894 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 983917010895 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 983917010896 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 983917010897 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 983917010898 Caspase domain; Region: Peptidase_C14; pfam00656 983917010899 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 983917010900 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 983917010901 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 983917010902 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 983917010903 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 983917010904 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 983917010905 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 983917010906 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 983917010907 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 983917010908 sequence-specific DNA binding site [nucleotide binding]; other site 983917010909 salt bridge; other site 983917010910 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 983917010911 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 983917010912 putative substrate-binding site; other site 983917010913 nickel binding site [ion binding]; other site 983917010914 HupF/HypC family; Region: HupF_HypC; pfam01455 983917010915 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 983917010916 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 983917010917 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 983917010918 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 983917010919 Rubredoxin; Region: Rubredoxin; pfam00301 983917010920 iron binding site [ion binding]; other site 983917010921 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 983917010922 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 983917010923 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 983917010924 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 983917010925 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 983917010926 HupF/HypC family; Region: HupF_HypC; pfam01455 983917010927 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 983917010928 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 983917010929 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 983917010930 dimerization interface [polypeptide binding]; other site 983917010931 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 983917010932 ATP binding site [chemical binding]; other site 983917010933 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 983917010934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917010935 active site 983917010936 phosphorylation site [posttranslational modification] 983917010937 intermolecular recognition site; other site 983917010938 dimerization interface [polypeptide binding]; other site 983917010939 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 983917010940 Walker A motif; other site 983917010941 ATP binding site [chemical binding]; other site 983917010942 Walker B motif; other site 983917010943 arginine finger; other site 983917010944 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917010945 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 983917010946 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 983917010947 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 983917010948 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 983917010949 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 983917010950 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 983917010951 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 983917010952 motif II; other site 983917010953 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 983917010954 intersubunit interface [polypeptide binding]; other site 983917010955 active site 983917010956 zinc binding site [ion binding]; other site 983917010957 Na+ binding site [ion binding]; other site 983917010958 phosphoglycolate phosphatase; Provisional; Region: PRK13222 983917010959 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 983917010960 motif II; other site 983917010961 transketolase; Reviewed; Region: PRK12753 983917010962 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 983917010963 TPP-binding site [chemical binding]; other site 983917010964 dimer interface [polypeptide binding]; other site 983917010965 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 983917010966 PYR/PP interface [polypeptide binding]; other site 983917010967 dimer interface [polypeptide binding]; other site 983917010968 TPP binding site [chemical binding]; other site 983917010969 phosphoribulokinase; Provisional; Region: PRK15453 983917010970 fructose-1,6-bisphosphatase family protein; Region: PLN02628 983917010971 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 983917010972 AMP binding site [chemical binding]; other site 983917010973 metal binding site [ion binding]; metal-binding site 983917010974 active site 983917010975 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 983917010976 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 983917010977 Walker A motif; other site 983917010978 ATP binding site [chemical binding]; other site 983917010979 Walker B motif; other site 983917010980 arginine finger; other site 983917010981 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 983917010982 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 983917010983 substrate binding site [chemical binding]; other site 983917010984 hexamer interface [polypeptide binding]; other site 983917010985 metal binding site [ion binding]; metal-binding site 983917010986 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 983917010987 multimerization interface [polypeptide binding]; other site 983917010988 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 983917010989 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 983917010990 homodimer interface [polypeptide binding]; other site 983917010991 active site 983917010992 heterodimer interface [polypeptide binding]; other site 983917010993 catalytic residue [active] 983917010994 metal binding site [ion binding]; metal-binding site 983917010995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917010996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917010997 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 983917010998 putative dimerization interface [polypeptide binding]; other site 983917010999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917011000 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 983917011001 putative active site [active] 983917011002 heme pocket [chemical binding]; other site 983917011003 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917011004 dimer interface [polypeptide binding]; other site 983917011005 phosphorylation site [posttranslational modification] 983917011006 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011007 ATP binding site [chemical binding]; other site 983917011008 Mg2+ binding site [ion binding]; other site 983917011009 G-X-G motif; other site 983917011010 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 983917011011 catalytic loop [active] 983917011012 iron binding site [ion binding]; other site 983917011013 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 983917011014 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 983917011015 putative acyl-acceptor binding pocket; other site 983917011016 Isochorismatase family; Region: Isochorismatase; pfam00857 983917011017 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 983917011018 catalytic triad [active] 983917011019 dimer interface [polypeptide binding]; other site 983917011020 conserved cis-peptide bond; other site 983917011021 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 983917011022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917011023 NAD(P) binding site [chemical binding]; other site 983917011024 active site 983917011025 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 983917011026 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 983917011027 PAAR motif; Region: PAAR_motif; pfam05488 983917011028 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 983917011029 metal-binding site [ion binding] 983917011030 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 983917011031 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 983917011032 metal-binding site [ion binding] 983917011033 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983917011034 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 983917011035 motif II; other site 983917011036 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 983917011037 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 983917011038 DNA binding residues [nucleotide binding] 983917011039 dimer interface [polypeptide binding]; other site 983917011040 copper binding site [ion binding]; other site 983917011041 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 983917011042 Predicted metal-binding protein [General function prediction only]; Region: COG3019 983917011043 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917011044 dimer interface [polypeptide binding]; other site 983917011045 phosphorylation site [posttranslational modification] 983917011046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011047 ATP binding site [chemical binding]; other site 983917011048 Mg2+ binding site [ion binding]; other site 983917011049 G-X-G motif; other site 983917011050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011051 active site 983917011052 dimerization interface [polypeptide binding]; other site 983917011053 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 983917011054 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 983917011055 Trp docking motif [polypeptide binding]; other site 983917011056 putative active site [active] 983917011057 putative oxidoreductase; Provisional; Region: PRK11579 983917011058 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 983917011059 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 983917011060 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 983917011061 catalytic triad [active] 983917011062 conserved cis-peptide bond; other site 983917011063 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 983917011064 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 983917011065 active site 983917011066 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 983917011067 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917011068 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917011069 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 983917011070 ligand binding site [chemical binding]; other site 983917011071 flexible hinge region; other site 983917011072 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 983917011073 non-specific DNA interactions [nucleotide binding]; other site 983917011074 DNA binding site [nucleotide binding] 983917011075 sequence specific DNA binding site [nucleotide binding]; other site 983917011076 putative cAMP binding site [chemical binding]; other site 983917011077 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 983917011078 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 983917011079 CheB methylesterase; Region: CheB_methylest; pfam01339 983917011080 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 983917011081 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 983917011082 PAS domain; Region: PAS_10; pfam13596 983917011083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917011084 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 983917011085 dimer interface [polypeptide binding]; other site 983917011086 phosphorylation site [posttranslational modification] 983917011087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011088 ATP binding site [chemical binding]; other site 983917011089 Mg2+ binding site [ion binding]; other site 983917011090 G-X-G motif; other site 983917011091 Response regulator receiver domain; Region: Response_reg; pfam00072 983917011092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011093 active site 983917011094 phosphorylation site [posttranslational modification] 983917011095 intermolecular recognition site; other site 983917011096 dimerization interface [polypeptide binding]; other site 983917011097 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 983917011098 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 983917011099 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 983917011100 active site 983917011101 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 983917011102 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 983917011103 domain interfaces; other site 983917011104 active site 983917011105 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 983917011106 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 983917011107 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983917011108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 983917011109 active site 983917011110 phosphorylation site [posttranslational modification] 983917011111 intermolecular recognition site; other site 983917011112 dimerization interface [polypeptide binding]; other site 983917011113 LytTr DNA-binding domain; Region: LytTR; smart00850 983917011114 Histidine kinase; Region: His_kinase; pfam06580 983917011115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011116 ATP binding site [chemical binding]; other site 983917011117 Mg2+ binding site [ion binding]; other site 983917011118 G-X-G motif; other site 983917011119 argininosuccinate lyase; Provisional; Region: PRK00855 983917011120 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 983917011121 active sites [active] 983917011122 tetramer interface [polypeptide binding]; other site 983917011123 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 983917011124 active site 983917011125 DNA polymerase IV; Validated; Region: PRK02406 983917011126 DNA binding site [nucleotide binding] 983917011127 Hemerythrin; Region: Hemerythrin; cd12107 983917011128 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 983917011129 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 983917011130 phosphate binding site [ion binding]; other site 983917011131 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 983917011132 trimer interface [polypeptide binding]; other site 983917011133 active site 983917011134 Protein of unknown function (DUF962); Region: DUF962; cl01879 983917011135 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 983917011136 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 983917011137 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917011138 catalytic residue [active] 983917011139 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 983917011140 FMN binding site [chemical binding]; other site 983917011141 dimer interface [polypeptide binding]; other site 983917011142 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917011143 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 983917011144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011145 dimer interface [polypeptide binding]; other site 983917011146 putative CheW interface [polypeptide binding]; other site 983917011147 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917011148 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 983917011149 dimerization interface [polypeptide binding]; other site 983917011150 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917011151 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011152 dimer interface [polypeptide binding]; other site 983917011153 putative CheW interface [polypeptide binding]; other site 983917011154 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 983917011155 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 983917011156 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 983917011157 catalytic loop [active] 983917011158 iron binding site [ion binding]; other site 983917011159 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 983917011160 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 983917011161 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 983917011162 [4Fe-4S] binding site [ion binding]; other site 983917011163 molybdopterin cofactor binding site; other site 983917011164 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 983917011165 molybdopterin cofactor binding site; other site 983917011166 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983917011167 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 983917011168 SLBB domain; Region: SLBB; pfam10531 983917011169 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 983917011170 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 983917011171 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983917011172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917011173 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 983917011174 dimerization interface [polypeptide binding]; other site 983917011175 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917011176 Domain of unknown function DUF59; Region: DUF59; pfam01883 983917011177 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 983917011178 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 983917011179 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 983917011180 active site 983917011181 HIGH motif; other site 983917011182 KMSKS motif; other site 983917011183 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 983917011184 tRNA binding surface [nucleotide binding]; other site 983917011185 anticodon binding site; other site 983917011186 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 983917011187 dimer interface [polypeptide binding]; other site 983917011188 putative tRNA-binding site [nucleotide binding]; other site 983917011189 MASE1; Region: MASE1; cl17823 983917011190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917011191 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917011192 dimer interface [polypeptide binding]; other site 983917011193 phosphorylation site [posttranslational modification] 983917011194 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011195 ATP binding site [chemical binding]; other site 983917011196 G-X-G motif; other site 983917011197 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 983917011198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917011199 substrate binding pocket [chemical binding]; other site 983917011200 membrane-bound complex binding site; other site 983917011201 hinge residues; other site 983917011202 Response regulator receiver domain; Region: Response_reg; pfam00072 983917011203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011204 active site 983917011205 phosphorylation site [posttranslational modification] 983917011206 intermolecular recognition site; other site 983917011207 dimerization interface [polypeptide binding]; other site 983917011208 putative transporter; Provisional; Region: PRK11660 983917011209 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 983917011210 Sulfate transporter family; Region: Sulfate_transp; pfam00916 983917011211 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 983917011212 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 983917011213 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 983917011214 putative active site; other site 983917011215 putative metal binding residues [ion binding]; other site 983917011216 signature motif; other site 983917011217 putative triphosphate binding site [ion binding]; other site 983917011218 CHAD domain; Region: CHAD; pfam05235 983917011219 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 983917011220 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 983917011221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917011222 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917011223 dimer interface [polypeptide binding]; other site 983917011224 phosphorylation site [posttranslational modification] 983917011225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011226 ATP binding site [chemical binding]; other site 983917011227 Mg2+ binding site [ion binding]; other site 983917011228 G-X-G motif; other site 983917011229 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917011230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011231 active site 983917011232 phosphorylation site [posttranslational modification] 983917011233 intermolecular recognition site; other site 983917011234 dimerization interface [polypeptide binding]; other site 983917011235 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 983917011236 DNA binding residues [nucleotide binding] 983917011237 dimerization interface [polypeptide binding]; other site 983917011238 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 983917011239 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 983917011240 P-loop; other site 983917011241 Magnesium ion binding site [ion binding]; other site 983917011242 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983917011243 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 983917011244 putative FMN binding site [chemical binding]; other site 983917011245 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 983917011246 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 983917011247 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 983917011248 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 983917011249 metal-binding site [ion binding] 983917011250 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 983917011251 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 983917011252 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917011253 Zn2+ binding site [ion binding]; other site 983917011254 Mg2+ binding site [ion binding]; other site 983917011255 Cytochrome c; Region: Cytochrom_C; cl11414 983917011256 Cytochrome c; Region: Cytochrom_C; cl11414 983917011257 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 983917011258 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 983917011259 Walker A motif; other site 983917011260 ATP binding site [chemical binding]; other site 983917011261 Walker B motif; other site 983917011262 arginine finger; other site 983917011263 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983917011264 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 983917011265 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 983917011266 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917011267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 983917011268 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 983917011269 Surface antigen; Region: Bac_surface_Ag; pfam01103 983917011270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 983917011271 Family of unknown function (DUF490); Region: DUF490; pfam04357 983917011272 potential protein location (hypothetical protein RGE_36970 [Rubrivivax gelatinosus IL144]) that overlaps RNA (tRNA-R) 983917011273 Protein of unknown function (DUF461); Region: DUF461; pfam04314 983917011274 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 983917011275 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 983917011276 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 983917011277 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 983917011278 PYR/PP interface [polypeptide binding]; other site 983917011279 dimer interface [polypeptide binding]; other site 983917011280 TPP binding site [chemical binding]; other site 983917011281 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 983917011282 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 983917011283 TPP-binding site [chemical binding]; other site 983917011284 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917011285 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 983917011286 ligand binding site [chemical binding]; other site 983917011287 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 983917011288 non-specific DNA interactions [nucleotide binding]; other site 983917011289 DNA binding site [nucleotide binding] 983917011290 sequence specific DNA binding site [nucleotide binding]; other site 983917011291 putative cAMP binding site [chemical binding]; other site 983917011292 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 983917011293 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 983917011294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 983917011295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917011296 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 983917011297 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 983917011298 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917011299 catalytic residue [active] 983917011300 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 983917011301 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 983917011302 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 983917011303 dimerization interface [polypeptide binding]; other site 983917011304 Flagellin N-methylase; Region: FliB; cl00497 983917011305 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 983917011306 DEAD_2; Region: DEAD_2; pfam06733 983917011307 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 983917011308 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 983917011309 hypothetical protein; Provisional; Region: PRK10621 983917011310 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983917011311 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 983917011312 RNA binding surface [nucleotide binding]; other site 983917011313 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 983917011314 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 983917011315 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983917011316 catalytic residue [active] 983917011317 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983917011318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917011319 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 983917011320 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 983917011321 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 983917011322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 983917011323 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 983917011324 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917011325 acyl-activating enzyme (AAE) consensus motif; other site 983917011326 AMP binding site [chemical binding]; other site 983917011327 active site 983917011328 CoA binding site [chemical binding]; other site 983917011329 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 983917011330 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 983917011331 substrate binding site [chemical binding]; other site 983917011332 oxyanion hole (OAH) forming residues; other site 983917011333 trimer interface [polypeptide binding]; other site 983917011334 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 983917011335 Ligand Binding Site [chemical binding]; other site 983917011336 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 983917011337 Ligand Binding Site [chemical binding]; other site 983917011338 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 983917011339 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 983917011340 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 983917011341 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 983917011342 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 983917011343 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 983917011344 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 983917011345 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 983917011346 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 983917011347 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 983917011348 cell division topological specificity factor MinE; Provisional; Region: PRK13989 983917011349 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 983917011350 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 983917011351 Switch I; other site 983917011352 Switch II; other site 983917011353 septum site-determining protein MinC; Region: minC; TIGR01222 983917011354 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 983917011355 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 983917011356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011357 dimer interface [polypeptide binding]; other site 983917011358 putative CheW interface [polypeptide binding]; other site 983917011359 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917011360 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917011361 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 983917011362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011363 active site 983917011364 phosphorylation site [posttranslational modification] 983917011365 intermolecular recognition site; other site 983917011366 dimerization interface [polypeptide binding]; other site 983917011367 CheB methylesterase; Region: CheB_methylest; pfam01339 983917011368 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 983917011369 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 983917011370 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 983917011371 S-adenosylmethionine binding site [chemical binding]; other site 983917011372 Response regulator receiver domain; Region: Response_reg; pfam00072 983917011373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011374 active site 983917011375 phosphorylation site [posttranslational modification] 983917011376 intermolecular recognition site; other site 983917011377 dimerization interface [polypeptide binding]; other site 983917011378 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 983917011379 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 983917011380 putative CheA interaction surface; other site 983917011381 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917011382 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 983917011383 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917011384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011385 dimer interface [polypeptide binding]; other site 983917011386 putative CheW interface [polypeptide binding]; other site 983917011387 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 983917011388 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 983917011389 putative binding surface; other site 983917011390 active site 983917011391 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 983917011392 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011393 ATP binding site [chemical binding]; other site 983917011394 Mg2+ binding site [ion binding]; other site 983917011395 G-X-G motif; other site 983917011396 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 983917011397 Response regulator receiver domain; Region: Response_reg; pfam00072 983917011398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011399 active site 983917011400 phosphorylation site [posttranslational modification] 983917011401 intermolecular recognition site; other site 983917011402 dimerization interface [polypeptide binding]; other site 983917011403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011404 dimer interface [polypeptide binding]; other site 983917011405 putative CheW interface [polypeptide binding]; other site 983917011406 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 983917011407 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 983917011408 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917011409 PAS domain; Region: PAS_9; pfam13426 983917011410 putative active site [active] 983917011411 heme pocket [chemical binding]; other site 983917011412 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917011413 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011414 dimer interface [polypeptide binding]; other site 983917011415 putative CheW interface [polypeptide binding]; other site 983917011416 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 983917011417 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 983917011418 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 983917011419 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 983917011420 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 983917011421 Family description; Region: UvrD_C_2; pfam13538 983917011422 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 983917011423 AAA domain; Region: AAA_30; pfam13604 983917011424 Family description; Region: UvrD_C_2; pfam13538 983917011425 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 983917011426 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983917011427 active site 983917011428 metal binding site [ion binding]; metal-binding site 983917011429 DNA binding site [nucleotide binding] 983917011430 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917011431 AAA domain; Region: AAA_23; pfam13476 983917011432 Walker A/P-loop; other site 983917011433 ATP binding site [chemical binding]; other site 983917011434 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 983917011435 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 983917011436 putative DNA binding site [nucleotide binding]; other site 983917011437 putative homodimer interface [polypeptide binding]; other site 983917011438 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 983917011439 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 983917011440 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 983917011441 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 983917011442 Walker A/P-loop; other site 983917011443 ATP binding site [chemical binding]; other site 983917011444 Q-loop/lid; other site 983917011445 ABC transporter signature motif; other site 983917011446 Walker B; other site 983917011447 D-loop; other site 983917011448 H-loop/switch region; other site 983917011449 TOBE domain; Region: TOBE_2; pfam08402 983917011450 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983917011451 C-terminal peptidase (prc); Region: prc; TIGR00225 983917011452 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 983917011453 protein binding site [polypeptide binding]; other site 983917011454 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 983917011455 Catalytic dyad [active] 983917011456 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 983917011457 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 983917011458 ATP binding site [chemical binding]; other site 983917011459 substrate interface [chemical binding]; other site 983917011460 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 983917011461 Arginase family; Region: Arginase; cd09989 983917011462 agmatinase; Region: agmatinase; TIGR01230 983917011463 active site 983917011464 Mn binding site [ion binding]; other site 983917011465 oligomer interface [polypeptide binding]; other site 983917011466 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983917011467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983917011468 ligand binding site [chemical binding]; other site 983917011469 Putative glucoamylase; Region: Glycoamylase; pfam10091 983917011470 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 983917011471 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 983917011472 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 983917011473 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917011474 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 983917011475 ligand binding site [chemical binding]; other site 983917011476 flexible hinge region; other site 983917011477 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 983917011478 non-specific DNA interactions [nucleotide binding]; other site 983917011479 DNA binding site [nucleotide binding] 983917011480 sequence specific DNA binding site [nucleotide binding]; other site 983917011481 putative cAMP binding site [chemical binding]; other site 983917011482 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917011483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917011484 metal binding site [ion binding]; metal-binding site 983917011485 active site 983917011486 I-site; other site 983917011487 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 983917011488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917011489 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 983917011490 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 983917011491 Protein of unknown function (DUF342); Region: DUF342; pfam03961 983917011492 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 983917011493 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 983917011494 Sulfate transporter family; Region: Sulfate_transp; pfam00916 983917011495 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 983917011496 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 983917011497 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 983917011498 catalytic triad [active] 983917011499 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 983917011500 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 983917011501 Catalytic site; other site 983917011502 Uncharacterized conserved protein [Function unknown]; Region: COG3339 983917011503 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 983917011504 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 983917011505 ATP binding site [chemical binding]; other site 983917011506 putative Mg++ binding site [ion binding]; other site 983917011507 nucleotide binding region [chemical binding]; other site 983917011508 helicase superfamily c-terminal domain; Region: HELICc; smart00490 983917011509 ATP-binding site [chemical binding]; other site 983917011510 DEAD/H associated; Region: DEAD_assoc; pfam08494 983917011511 L-asparaginase II; Region: Asparaginase_II; pfam06089 983917011512 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 983917011513 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 983917011514 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 983917011515 dimer interface [polypeptide binding]; other site 983917011516 conserved gate region; other site 983917011517 putative PBP binding loops; other site 983917011518 ABC-ATPase subunit interface; other site 983917011519 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 983917011520 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 983917011521 dimer interface [polypeptide binding]; other site 983917011522 conserved gate region; other site 983917011523 putative PBP binding loops; other site 983917011524 ABC-ATPase subunit interface; other site 983917011525 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 983917011526 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 983917011527 Walker A/P-loop; other site 983917011528 ATP binding site [chemical binding]; other site 983917011529 Q-loop/lid; other site 983917011530 ABC transporter signature motif; other site 983917011531 Walker B; other site 983917011532 D-loop; other site 983917011533 H-loop/switch region; other site 983917011534 TOBE domain; Region: TOBE_2; pfam08402 983917011535 PQQ-like domain; Region: PQQ_2; pfam13360 983917011536 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 983917011537 active site 983917011538 Trp docking motif [polypeptide binding]; other site 983917011539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917011540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917011541 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 983917011542 putative effector binding pocket; other site 983917011543 dimerization interface [polypeptide binding]; other site 983917011544 Tetratricopeptide repeat; Region: TPR_12; pfam13424 983917011545 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 983917011546 binding surface 983917011547 TPR motif; other site 983917011548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917011549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917011550 metal binding site [ion binding]; metal-binding site 983917011551 active site 983917011552 I-site; other site 983917011553 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983917011554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917011555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917011556 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 983917011557 dimerization interface [polypeptide binding]; other site 983917011558 short chain dehydrogenase; Provisional; Region: PRK12939 983917011559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917011560 NAD(P) binding site [chemical binding]; other site 983917011561 active site 983917011562 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 983917011563 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 983917011564 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 983917011565 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 983917011566 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 983917011567 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 983917011568 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 983917011569 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 983917011570 rRNA binding site [nucleotide binding]; other site 983917011571 predicted 30S ribosome binding site; other site 983917011572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917011573 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 983917011574 DNA binding residues [nucleotide binding] 983917011575 hypothetical protein; Provisional; Region: PRK05409 983917011576 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 983917011577 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 983917011578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917011579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917011580 metal binding site [ion binding]; metal-binding site 983917011581 active site 983917011582 I-site; other site 983917011583 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 983917011584 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 983917011585 active sites [active] 983917011586 tetramer interface [polypeptide binding]; other site 983917011587 urocanate hydratase; Provisional; Region: PRK05414 983917011588 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 983917011589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917011590 DNA-binding site [nucleotide binding]; DNA binding site 983917011591 UTRA domain; Region: UTRA; pfam07702 983917011592 HutD; Region: HutD; pfam05962 983917011593 imidazolonepropionase; Validated; Region: PRK09356 983917011594 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 983917011595 active site 983917011596 N-formylglutamate amidohydrolase; Region: FGase; cl01522 983917011597 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 983917011598 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 983917011599 active site 983917011600 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 983917011601 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 983917011602 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 983917011603 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 983917011604 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 983917011605 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 983917011606 Cadherin repeat-like domain; Region: CA_like; cl15786 983917011607 Ca2+ binding site [ion binding]; other site 983917011608 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 983917011609 Outer membrane efflux protein; Region: OEP; pfam02321 983917011610 Outer membrane efflux protein; Region: OEP; pfam02321 983917011611 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917011612 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917011613 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917011614 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917011615 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 983917011616 active site 983917011617 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917011618 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917011619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 983917011620 transposase/IS protein; Provisional; Region: PRK09183 983917011621 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 983917011622 Walker A motif; other site 983917011623 ATP binding site [chemical binding]; other site 983917011624 Walker B motif; other site 983917011625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 983917011626 Integrase core domain; Region: rve; pfam00665 983917011627 Integrase core domain; Region: rve_3; cl15866 983917011628 NIPSNAP; Region: NIPSNAP; pfam07978 983917011629 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 983917011630 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 983917011631 putative DNA binding site [nucleotide binding]; other site 983917011632 putative Zn2+ binding site [ion binding]; other site 983917011633 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 983917011634 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 983917011635 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 983917011636 Methyltransferase domain; Region: Methyltransf_23; pfam13489 983917011637 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 983917011638 S-adenosylmethionine binding site [chemical binding]; other site 983917011639 aconitate hydratase; Validated; Region: PRK09277 983917011640 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 983917011641 substrate binding site [chemical binding]; other site 983917011642 ligand binding site [chemical binding]; other site 983917011643 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 983917011644 substrate binding site [chemical binding]; other site 983917011645 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 983917011646 Bacterial transcriptional regulator; Region: IclR; pfam01614 983917011647 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 983917011648 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 983917011649 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 983917011650 Putative Ig domain; Region: He_PIG; pfam05345 983917011651 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 983917011652 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 983917011653 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 983917011654 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983917011655 ATP binding site [chemical binding]; other site 983917011656 Mg++ binding site [ion binding]; other site 983917011657 motif III; other site 983917011658 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 983917011659 nucleotide binding region [chemical binding]; other site 983917011660 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 983917011661 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 983917011662 ATP binding site [chemical binding]; other site 983917011663 Mg++ binding site [ion binding]; other site 983917011664 motif III; other site 983917011665 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 983917011666 nucleotide binding region [chemical binding]; other site 983917011667 ATP-binding site [chemical binding]; other site 983917011668 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 983917011669 putative RNA binding site [nucleotide binding]; other site 983917011670 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 983917011671 putative alcohol dehydrogenase; Provisional; Region: PRK09860 983917011672 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 983917011673 dimer interface [polypeptide binding]; other site 983917011674 active site 983917011675 metal binding site [ion binding]; metal-binding site 983917011676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917011677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917011678 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 983917011679 putative dimerization interface [polypeptide binding]; other site 983917011680 putative effector binding pocket; other site 983917011681 short chain dehydrogenase; Provisional; Region: PRK06180 983917011682 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 983917011683 NADP binding site [chemical binding]; other site 983917011684 active site 983917011685 steroid binding site; other site 983917011686 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 983917011687 ribonuclease G; Provisional; Region: PRK11712 983917011688 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 983917011689 homodimer interface [polypeptide binding]; other site 983917011690 oligonucleotide binding site [chemical binding]; other site 983917011691 Maf-like protein; Region: Maf; pfam02545 983917011692 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 983917011693 active site 983917011694 dimer interface [polypeptide binding]; other site 983917011695 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 983917011696 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 983917011697 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 983917011698 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 983917011699 active site 983917011700 (T/H)XGH motif; other site 983917011701 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 983917011702 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 983917011703 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 983917011704 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 983917011705 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 983917011706 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 983917011707 hypothetical protein; Validated; Region: PRK00110 983917011708 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 983917011709 Sensors of blue-light using FAD; Region: BLUF; smart01034 983917011710 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 983917011711 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 983917011712 homotrimer interaction site [polypeptide binding]; other site 983917011713 putative active site [active] 983917011714 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 983917011715 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917011716 active site 983917011717 HIGH motif; other site 983917011718 nucleotide binding site [chemical binding]; other site 983917011719 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917011720 active site 983917011721 KMSKS motif; other site 983917011722 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 983917011723 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 983917011724 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 983917011725 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 983917011726 Protein of unknown function (DUF808); Region: DUF808; pfam05661 983917011727 HDOD domain; Region: HDOD; pfam08668 983917011728 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 983917011729 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 983917011730 P-loop; other site 983917011731 Magnesium ion binding site [ion binding]; other site 983917011732 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 983917011733 Magnesium ion binding site [ion binding]; other site 983917011734 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 983917011735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917011736 DNA-binding site [nucleotide binding]; DNA binding site 983917011737 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 983917011738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917011739 homodimer interface [polypeptide binding]; other site 983917011740 catalytic residue [active] 983917011741 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 983917011742 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 983917011743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917011744 catalytic residue [active] 983917011745 Hemerythrin; Region: Hemerythrin; cd12107 983917011746 Fe binding site [ion binding]; other site 983917011747 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917011748 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917011749 metal binding site [ion binding]; metal-binding site 983917011750 active site 983917011751 I-site; other site 983917011752 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 983917011753 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 983917011754 active site 983917011755 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 983917011756 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 983917011757 active site 983917011758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983917011759 Coenzyme A binding pocket [chemical binding]; other site 983917011760 transposase, IS4 family 983917011761 transposase, IS4 family 983917011762 transposase, IS4 family 983917011763 Transposase; Region: DEDD_Tnp_IS110; pfam01548 983917011764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 983917011765 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 983917011766 hypothetical protein; Provisional; Region: PRK01254 983917011767 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 983917011768 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 983917011769 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 983917011770 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 983917011771 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 983917011772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917011773 Walker A/P-loop; other site 983917011774 ATP binding site [chemical binding]; other site 983917011775 Q-loop/lid; other site 983917011776 ABC transporter signature motif; other site 983917011777 Walker B; other site 983917011778 D-loop; other site 983917011779 H-loop/switch region; other site 983917011780 choline dehydrogenase; Validated; Region: PRK02106 983917011781 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 983917011782 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 983917011783 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 983917011784 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 983917011785 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 983917011786 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 983917011787 FMN binding site [chemical binding]; other site 983917011788 dimer interface [polypeptide binding]; other site 983917011789 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 983917011790 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983917011791 active site 983917011792 metal binding site [ion binding]; metal-binding site 983917011793 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983917011794 active site 983917011795 metal binding site [ion binding]; metal-binding site 983917011796 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 983917011797 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 983917011798 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 983917011799 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917011800 catalytic residue [active] 983917011801 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 983917011802 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 983917011803 dimer interface [polypeptide binding]; other site 983917011804 active site 983917011805 glycine-pyridoxal phosphate binding site [chemical binding]; other site 983917011806 folate binding site [chemical binding]; other site 983917011807 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 983917011808 ATP cone domain; Region: ATP-cone; pfam03477 983917011809 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 983917011810 hypothetical protein; Provisional; Region: PRK10557 983917011811 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 983917011812 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 983917011813 catalytic motif [active] 983917011814 Zn binding site [ion binding]; other site 983917011815 RibD C-terminal domain; Region: RibD_C; cl17279 983917011816 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 983917011817 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 983917011818 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 983917011819 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 983917011820 homopentamer interface [polypeptide binding]; other site 983917011821 active site 983917011822 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 983917011823 aminotransferase; Validated; Region: PRK07337 983917011824 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 983917011825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917011826 homodimer interface [polypeptide binding]; other site 983917011827 catalytic residue [active] 983917011828 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 983917011829 active site 983917011830 TolQ protein; Region: tolQ; TIGR02796 983917011831 TolR protein; Region: tolR; TIGR02801 983917011832 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 983917011833 TolA protein; Region: tolA_full; TIGR02794 983917011834 TonB C terminal; Region: TonB_2; pfam13103 983917011835 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 983917011836 putative substrate binding pocket [chemical binding]; other site 983917011837 AC domain interface; other site 983917011838 catalytic triad [active] 983917011839 AB domain interface; other site 983917011840 interchain disulfide; other site 983917011841 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 983917011842 Sulfatase; Region: Sulfatase; pfam00884 983917011843 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 983917011844 active site 983917011845 5-oxoprolinase; Region: PLN02666 983917011846 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 983917011847 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 983917011848 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 983917011849 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 983917011850 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 983917011851 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 983917011852 Walker A motif; other site 983917011853 ATP binding site [chemical binding]; other site 983917011854 Walker B motif; other site 983917011855 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 983917011856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917011857 Walker A/P-loop; other site 983917011858 ATP binding site [chemical binding]; other site 983917011859 Q-loop/lid; other site 983917011860 ABC transporter signature motif; other site 983917011861 Walker B; other site 983917011862 D-loop; other site 983917011863 H-loop/switch region; other site 983917011864 ABC-2 type transporter; Region: ABC2_membrane; cl17235 983917011865 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 983917011866 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 983917011867 PBP superfamily domain; Region: PBP_like; cl17867 983917011868 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917011869 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 983917011870 N-terminal plug; other site 983917011871 ligand-binding site [chemical binding]; other site 983917011872 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 983917011873 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 983917011874 catalytic loop [active] 983917011875 iron binding site [ion binding]; other site 983917011876 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 983917011877 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 983917011878 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 983917011879 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 983917011880 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 983917011881 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 983917011882 MoxR-like ATPases [General function prediction only]; Region: COG0714 983917011883 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 983917011884 Walker A motif; other site 983917011885 ATP binding site [chemical binding]; other site 983917011886 Walker B motif; other site 983917011887 arginine finger; other site 983917011888 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 983917011889 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 983917011890 E-class dimer interface [polypeptide binding]; other site 983917011891 P-class dimer interface [polypeptide binding]; other site 983917011892 active site 983917011893 Cu2+ binding site [ion binding]; other site 983917011894 Zn2+ binding site [ion binding]; other site 983917011895 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 983917011896 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 983917011897 metal ion-dependent adhesion site (MIDAS); other site 983917011898 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 983917011899 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917011900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011901 active site 983917011902 phosphorylation site [posttranslational modification] 983917011903 intermolecular recognition site; other site 983917011904 dimerization interface [polypeptide binding]; other site 983917011905 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 983917011906 DNA binding residues [nucleotide binding] 983917011907 dimerization interface [polypeptide binding]; other site 983917011908 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917011909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011910 active site 983917011911 phosphorylation site [posttranslational modification] 983917011912 intermolecular recognition site; other site 983917011913 Histidine kinase; Region: HisKA_3; pfam07730 983917011914 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 983917011915 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011916 ATP binding site [chemical binding]; other site 983917011917 Mg2+ binding site [ion binding]; other site 983917011918 G-X-G motif; other site 983917011919 Response regulator receiver domain; Region: Response_reg; pfam00072 983917011920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011921 active site 983917011922 phosphorylation site [posttranslational modification] 983917011923 intermolecular recognition site; other site 983917011924 dimerization interface [polypeptide binding]; other site 983917011925 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 983917011926 putative binding surface; other site 983917011927 active site 983917011928 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 983917011929 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011930 ATP binding site [chemical binding]; other site 983917011931 Mg2+ binding site [ion binding]; other site 983917011932 G-X-G motif; other site 983917011933 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 983917011934 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 983917011935 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 983917011936 dimerization interface [polypeptide binding]; other site 983917011937 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011938 dimer interface [polypeptide binding]; other site 983917011939 putative CheW interface [polypeptide binding]; other site 983917011940 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917011941 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 983917011942 dimerization interface [polypeptide binding]; other site 983917011943 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917011944 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011945 dimer interface [polypeptide binding]; other site 983917011946 putative CheW interface [polypeptide binding]; other site 983917011947 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917011948 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011949 dimer interface [polypeptide binding]; other site 983917011950 putative CheW interface [polypeptide binding]; other site 983917011951 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 983917011952 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 983917011953 dimerization interface [polypeptide binding]; other site 983917011954 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917011955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917011956 dimer interface [polypeptide binding]; other site 983917011957 putative CheW interface [polypeptide binding]; other site 983917011958 PAS fold; Region: PAS_7; pfam12860 983917011959 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917011960 PAS domain; Region: PAS_9; pfam13426 983917011961 putative active site [active] 983917011962 heme pocket [chemical binding]; other site 983917011963 PAS fold; Region: PAS_7; pfam12860 983917011964 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917011965 PAS domain; Region: PAS_9; pfam13426 983917011966 putative active site [active] 983917011967 heme pocket [chemical binding]; other site 983917011968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917011969 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917011970 dimer interface [polypeptide binding]; other site 983917011971 phosphorylation site [posttranslational modification] 983917011972 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917011973 ATP binding site [chemical binding]; other site 983917011974 Mg2+ binding site [ion binding]; other site 983917011975 G-X-G motif; other site 983917011976 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917011977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917011978 active site 983917011979 phosphorylation site [posttranslational modification] 983917011980 intermolecular recognition site; other site 983917011981 dimerization interface [polypeptide binding]; other site 983917011982 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 983917011983 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 983917011984 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 983917011985 putative active site [active] 983917011986 metal binding site [ion binding]; metal-binding site 983917011987 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 983917011988 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 983917011989 active site 983917011990 purine riboside binding site [chemical binding]; other site 983917011991 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 983917011992 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 983917011993 putative ligand binding site [chemical binding]; other site 983917011994 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 983917011995 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917011996 TM-ABC transporter signature motif; other site 983917011997 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 983917011998 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 983917011999 TM-ABC transporter signature motif; other site 983917012000 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 983917012001 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 983917012002 Walker A/P-loop; other site 983917012003 ATP binding site [chemical binding]; other site 983917012004 Q-loop/lid; other site 983917012005 ABC transporter signature motif; other site 983917012006 Walker B; other site 983917012007 D-loop; other site 983917012008 H-loop/switch region; other site 983917012009 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 983917012010 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 983917012011 Walker A/P-loop; other site 983917012012 ATP binding site [chemical binding]; other site 983917012013 Q-loop/lid; other site 983917012014 ABC transporter signature motif; other site 983917012015 Walker B; other site 983917012016 D-loop; other site 983917012017 H-loop/switch region; other site 983917012018 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 983917012019 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 983917012020 MarR family; Region: MarR_2; pfam12802 983917012021 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 983917012022 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983917012023 putative substrate translocation pore; other site 983917012024 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 983917012025 dimer interface [polypeptide binding]; other site 983917012026 Alkaline phosphatase homologues; Region: alkPPc; smart00098 983917012027 active site 983917012028 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 983917012029 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 983917012030 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917012031 Walker A/P-loop; other site 983917012032 ATP binding site [chemical binding]; other site 983917012033 Q-loop/lid; other site 983917012034 ABC transporter signature motif; other site 983917012035 Walker B; other site 983917012036 D-loop; other site 983917012037 H-loop/switch region; other site 983917012038 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 983917012039 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 983917012040 tetramer interface [polypeptide binding]; other site 983917012041 catalytic Zn binding site [ion binding]; other site 983917012042 NADP binding site [chemical binding]; other site 983917012043 circadian clock protein KaiC; Reviewed; Region: PRK09302 983917012044 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 983917012045 Walker A motif; other site 983917012046 ATP binding site [chemical binding]; other site 983917012047 Walker B motif; other site 983917012048 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 983917012049 Walker A motif; other site 983917012050 ATP binding site [chemical binding]; other site 983917012051 Walker B motif; other site 983917012052 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 983917012053 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 983917012054 tetramer interface [polypeptide binding]; other site 983917012055 dimer interface [polypeptide binding]; other site 983917012056 PAS fold; Region: PAS; pfam00989 983917012057 PAS domain; Region: PAS; smart00091 983917012058 putative active site [active] 983917012059 heme pocket [chemical binding]; other site 983917012060 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917012061 PAS domain; Region: PAS_9; pfam13426 983917012062 putative active site [active] 983917012063 heme pocket [chemical binding]; other site 983917012064 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917012065 PAS domain; Region: PAS_9; pfam13426 983917012066 putative active site [active] 983917012067 heme pocket [chemical binding]; other site 983917012068 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917012069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917012070 metal binding site [ion binding]; metal-binding site 983917012071 active site 983917012072 I-site; other site 983917012073 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 983917012074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917012075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917012076 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 983917012077 putative effector binding pocket; other site 983917012078 dimerization interface [polypeptide binding]; other site 983917012079 EamA-like transporter family; Region: EamA; pfam00892 983917012080 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 983917012081 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 983917012082 Nuclease-related domain; Region: NERD; pfam08378 983917012083 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 983917012084 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 983917012085 N-terminal plug; other site 983917012086 ligand-binding site [chemical binding]; other site 983917012087 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 983917012088 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 983917012089 UreD urease accessory protein; Region: UreD; pfam01774 983917012090 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 983917012091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917012092 DNA-binding site [nucleotide binding]; DNA binding site 983917012093 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 983917012094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917012095 homodimer interface [polypeptide binding]; other site 983917012096 catalytic residue [active] 983917012097 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 983917012098 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 983917012099 nucleoside/Zn binding site; other site 983917012100 dimer interface [polypeptide binding]; other site 983917012101 catalytic motif [active] 983917012102 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 983917012103 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 983917012104 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 983917012105 dimer interface [polypeptide binding]; other site 983917012106 conserved gate region; other site 983917012107 putative PBP binding loops; other site 983917012108 ABC-ATPase subunit interface; other site 983917012109 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 983917012110 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 983917012111 Walker A/P-loop; other site 983917012112 ATP binding site [chemical binding]; other site 983917012113 Q-loop/lid; other site 983917012114 ABC transporter signature motif; other site 983917012115 Walker B; other site 983917012116 D-loop; other site 983917012117 H-loop/switch region; other site 983917012118 NMT1/THI5 like; Region: NMT1; pfam09084 983917012119 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 983917012120 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 983917012121 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 983917012122 metal binding site [ion binding]; metal-binding site 983917012123 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 983917012124 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 983917012125 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 983917012126 active site 983917012127 metal binding site [ion binding]; metal-binding site 983917012128 dimer interface [polypeptide binding]; other site 983917012129 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 983917012130 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 983917012131 active site 983917012132 catalytic site [active] 983917012133 tetramer interface [polypeptide binding]; other site 983917012134 Transcriptional regulators [Transcription]; Region: FadR; COG2186 983917012135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917012136 DNA-binding site [nucleotide binding]; DNA binding site 983917012137 FCD domain; Region: FCD; pfam07729 983917012138 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 983917012139 active site 983917012140 homotetramer interface [polypeptide binding]; other site 983917012141 Predicted membrane protein [Function unknown]; Region: COG3748 983917012142 Protein of unknown function (DUF989); Region: DUF989; pfam06181 983917012143 Cytochrome c; Region: Cytochrom_C; pfam00034 983917012144 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 983917012145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917012146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917012147 LysR substrate binding domain; Region: LysR_substrate; pfam03466 983917012148 dimerization interface [polypeptide binding]; other site 983917012149 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 983917012150 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 983917012151 dimer interface [polypeptide binding]; other site 983917012152 acyl-activating enzyme (AAE) consensus motif; other site 983917012153 putative active site [active] 983917012154 AMP binding site [chemical binding]; other site 983917012155 putative CoA binding site [chemical binding]; other site 983917012156 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917012157 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 983917012158 ligand binding site [chemical binding]; other site 983917012159 flexible hinge region; other site 983917012160 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 983917012161 non-specific DNA interactions [nucleotide binding]; other site 983917012162 DNA binding site [nucleotide binding] 983917012163 sequence specific DNA binding site [nucleotide binding]; other site 983917012164 putative cAMP binding site [chemical binding]; other site 983917012165 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 983917012166 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 983917012167 XdhC Rossmann domain; Region: XdhC_C; pfam13478 983917012168 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 983917012169 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 983917012170 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 983917012171 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 983917012172 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 983917012173 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 983917012174 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 983917012175 guanine deaminase; Provisional; Region: PRK09228 983917012176 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 983917012177 active site 983917012178 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 983917012179 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 983917012180 Walker A/P-loop; other site 983917012181 ATP binding site [chemical binding]; other site 983917012182 Q-loop/lid; other site 983917012183 ABC transporter signature motif; other site 983917012184 Walker B; other site 983917012185 D-loop; other site 983917012186 H-loop/switch region; other site 983917012187 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 983917012188 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917012189 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 983917012190 TM-ABC transporter signature motif; other site 983917012191 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917012192 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 983917012193 TM-ABC transporter signature motif; other site 983917012194 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 983917012195 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 983917012196 putative ligand binding site [chemical binding]; other site 983917012197 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 983917012198 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 983917012199 trimer interface [polypeptide binding]; other site 983917012200 eyelet of channel; other site 983917012201 oligoendopeptidase F; Region: pepF; TIGR00181 983917012202 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 983917012203 active site 983917012204 Zn binding site [ion binding]; other site 983917012205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012206 active site 983917012207 phosphorylation site [posttranslational modification] 983917012208 intermolecular recognition site; other site 983917012209 dimerization interface [polypeptide binding]; other site 983917012210 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 983917012211 DNA binding residues [nucleotide binding] 983917012212 dimerization interface [polypeptide binding]; other site 983917012213 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 983917012214 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917012215 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917012216 dimer interface [polypeptide binding]; other site 983917012217 phosphorylation site [posttranslational modification] 983917012218 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917012219 ATP binding site [chemical binding]; other site 983917012220 Mg2+ binding site [ion binding]; other site 983917012221 G-X-G motif; other site 983917012222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012223 Response regulator receiver domain; Region: Response_reg; pfam00072 983917012224 active site 983917012225 phosphorylation site [posttranslational modification] 983917012226 intermolecular recognition site; other site 983917012227 dimerization interface [polypeptide binding]; other site 983917012228 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 983917012229 alpha-gamma subunit interface [polypeptide binding]; other site 983917012230 beta-gamma subunit interface [polypeptide binding]; other site 983917012231 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 983917012232 gamma-beta subunit interface [polypeptide binding]; other site 983917012233 alpha-beta subunit interface [polypeptide binding]; other site 983917012234 urease subunit alpha; Reviewed; Region: ureC; PRK13207 983917012235 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 983917012236 subunit interactions [polypeptide binding]; other site 983917012237 active site 983917012238 flap region; other site 983917012239 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 983917012240 cyanophycin synthetase; Provisional; Region: PRK14016 983917012241 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 983917012242 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983917012243 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917012244 cyanophycin synthetase; Provisional; Region: PRK14016 983917012245 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 983917012246 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 983917012247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 983917012248 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 983917012249 Walker A/P-loop; other site 983917012250 ATP binding site [chemical binding]; other site 983917012251 Q-loop/lid; other site 983917012252 ABC transporter signature motif; other site 983917012253 Walker B; other site 983917012254 D-loop; other site 983917012255 H-loop/switch region; other site 983917012256 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 983917012257 ORF6N domain; Region: ORF6N; pfam10543 983917012258 tartrate dehydrogenase; Region: TTC; TIGR02089 983917012259 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 983917012260 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 983917012261 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983917012262 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983917012263 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 983917012264 hypothetical protein; Provisional; Region: PRK02399 983917012265 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 983917012266 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 983917012267 aromatic arch; other site 983917012268 DCoH dimer interaction site [polypeptide binding]; other site 983917012269 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 983917012270 DCoH tetramer interaction site [polypeptide binding]; other site 983917012271 substrate binding site [chemical binding]; other site 983917012272 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 983917012273 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 983917012274 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 983917012275 NAD(P) binding pocket [chemical binding]; other site 983917012276 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917012277 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 983917012278 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 983917012279 trimer interface I [polypeptide binding]; other site 983917012280 putative substrate binding pocket [chemical binding]; other site 983917012281 trimer interface II [polypeptide binding]; other site 983917012282 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917012283 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 983917012284 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 983917012285 Dihydroneopterin aldolase; Region: FolB; smart00905 983917012286 active site 983917012287 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 983917012288 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 983917012289 Walker A motif; other site 983917012290 ATP binding site [chemical binding]; other site 983917012291 Walker B motif; other site 983917012292 arginine finger; other site 983917012293 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917012294 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 983917012295 Flavoprotein; Region: Flavoprotein; pfam02441 983917012296 Protein of unknown function (DUF447); Region: DUF447; pfam04289 983917012297 hypothetical protein; Provisional; Region: PRK02227 983917012298 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 983917012299 nucleotide binding site [chemical binding]; other site 983917012300 substrate binding site [chemical binding]; other site 983917012301 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 983917012302 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917012303 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 983917012304 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 983917012305 active site 983917012306 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 983917012307 molybdopterin cofactor binding site; other site 983917012308 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 983917012309 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 983917012310 active site 983917012311 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 983917012312 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 983917012313 FTR, proximal lobe; Region: FTR_C; pfam02741 983917012314 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 983917012315 domain_subunit interface; other site 983917012316 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 983917012317 aminodeoxychorismate synthase; Provisional; Region: PRK07508 983917012318 chorismate binding enzyme; Region: Chorismate_bind; cl10555 983917012319 Aminotransferase class IV; Region: Aminotran_4; pfam01063 983917012320 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 983917012321 substrate-cofactor binding pocket; other site 983917012322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917012323 catalytic residue [active] 983917012324 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 983917012325 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 983917012326 HAMP domain; Region: HAMP; pfam00672 983917012327 dimerization interface [polypeptide binding]; other site 983917012328 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917012329 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917012330 dimer interface [polypeptide binding]; other site 983917012331 putative CheW interface [polypeptide binding]; other site 983917012332 Peptidase family M48; Region: Peptidase_M48; cl12018 983917012333 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917012334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012335 active site 983917012336 phosphorylation site [posttranslational modification] 983917012337 intermolecular recognition site; other site 983917012338 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 983917012339 DNA binding residues [nucleotide binding] 983917012340 dimerization interface [polypeptide binding]; other site 983917012341 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 983917012342 dimerization interface [polypeptide binding]; other site 983917012343 Histidine kinase; Region: HisKA_3; pfam07730 983917012344 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 983917012345 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 983917012346 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 983917012347 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 983917012348 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 983917012349 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 983917012350 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 983917012351 FeS/SAM binding site; other site 983917012352 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 983917012353 Cytochrome c; Region: Cytochrom_C; cl11414 983917012354 Cytochrome c; Region: Cytochrom_C; pfam00034 983917012355 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 983917012356 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 983917012357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917012358 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 983917012359 putative hydrophobic ligand binding site [chemical binding]; other site 983917012360 protein interface [polypeptide binding]; other site 983917012361 gate; other site 983917012362 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 983917012363 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 983917012364 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 983917012365 substrate binding pocket [chemical binding]; other site 983917012366 membrane-bound complex binding site; other site 983917012367 hinge residues; other site 983917012368 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 983917012369 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 983917012370 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 983917012371 Trp docking motif [polypeptide binding]; other site 983917012372 dimer interface [polypeptide binding]; other site 983917012373 active site 983917012374 small subunit binding site [polypeptide binding]; other site 983917012375 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 983917012376 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 983917012377 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 983917012378 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 983917012379 ligand binding site [chemical binding]; other site 983917012380 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917012381 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 983917012382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917012383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012384 active site 983917012385 phosphorylation site [posttranslational modification] 983917012386 intermolecular recognition site; other site 983917012387 dimerization interface [polypeptide binding]; other site 983917012388 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 983917012389 DNA binding residues [nucleotide binding] 983917012390 dimerization interface [polypeptide binding]; other site 983917012391 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917012392 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 983917012393 N-terminal plug; other site 983917012394 ligand-binding site [chemical binding]; other site 983917012395 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917012396 dimer interface [polypeptide binding]; other site 983917012397 phosphorylation site [posttranslational modification] 983917012398 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917012399 ATP binding site [chemical binding]; other site 983917012400 Mg2+ binding site [ion binding]; other site 983917012401 G-X-G motif; other site 983917012402 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 983917012403 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 983917012404 dimer interface [polypeptide binding]; other site 983917012405 catalytic residues [active] 983917012406 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 983917012407 UreF; Region: UreF; pfam01730 983917012408 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 983917012409 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 983917012410 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 983917012411 G1 box; other site 983917012412 GTP/Mg2+ binding site [chemical binding]; other site 983917012413 Switch I region; other site 983917012414 G2 box; other site 983917012415 G3 box; other site 983917012416 Switch II region; other site 983917012417 G4 box; other site 983917012418 G5 box; other site 983917012419 Nucleoside recognition; Region: Gate; pfam07670 983917012420 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 983917012421 Nucleoside recognition; Region: Gate; pfam07670 983917012422 FeoA domain; Region: FeoA; pfam04023 983917012423 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 983917012424 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 983917012425 oligomer interface [polypeptide binding]; other site 983917012426 metal binding site [ion binding]; metal-binding site 983917012427 metal binding site [ion binding]; metal-binding site 983917012428 putative Cl binding site [ion binding]; other site 983917012429 basic sphincter; other site 983917012430 hydrophobic gate; other site 983917012431 periplasmic entrance; other site 983917012432 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 983917012433 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 983917012434 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 983917012435 putative substrate translocation pore; other site 983917012436 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 983917012437 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 983917012438 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917012439 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917012440 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 983917012441 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 983917012442 MarR family; Region: MarR; pfam01047 983917012443 MarR family; Region: MarR_2; cl17246 983917012444 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 983917012445 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 983917012446 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 983917012447 tandem repeat interface [polypeptide binding]; other site 983917012448 oligomer interface [polypeptide binding]; other site 983917012449 active site residues [active] 983917012450 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 983917012451 iron-sulfur cluster [ion binding]; other site 983917012452 [2Fe-2S] cluster binding site [ion binding]; other site 983917012453 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 983917012454 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 983917012455 motif II; other site 983917012456 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 983917012457 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 983917012458 RNA binding surface [nucleotide binding]; other site 983917012459 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 983917012460 active site 983917012461 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 983917012462 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 983917012463 homodimer interface [polypeptide binding]; other site 983917012464 oligonucleotide binding site [chemical binding]; other site 983917012465 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 983917012466 beta-hexosaminidase; Provisional; Region: PRK05337 983917012467 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 983917012468 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 983917012469 active site 983917012470 hydrophilic channel; other site 983917012471 dimerization interface [polypeptide binding]; other site 983917012472 catalytic residues [active] 983917012473 active site lid [active] 983917012474 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 983917012475 Recombination protein O N terminal; Region: RecO_N; pfam11967 983917012476 GTPase Era; Reviewed; Region: era; PRK00089 983917012477 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 983917012478 G1 box; other site 983917012479 GTP/Mg2+ binding site [chemical binding]; other site 983917012480 Switch I region; other site 983917012481 G2 box; other site 983917012482 Switch II region; other site 983917012483 G3 box; other site 983917012484 G4 box; other site 983917012485 G5 box; other site 983917012486 KH domain; Region: KH_2; pfam07650 983917012487 ribonuclease III; Reviewed; Region: rnc; PRK00102 983917012488 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 983917012489 dimerization interface [polypeptide binding]; other site 983917012490 active site 983917012491 metal binding site [ion binding]; metal-binding site 983917012492 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 983917012493 dsRNA binding site [nucleotide binding]; other site 983917012494 signal peptidase I; Provisional; Region: PRK10861 983917012495 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 983917012496 Catalytic site [active] 983917012497 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 983917012498 GTP-binding protein LepA; Provisional; Region: PRK05433 983917012499 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 983917012500 G1 box; other site 983917012501 putative GEF interaction site [polypeptide binding]; other site 983917012502 GTP/Mg2+ binding site [chemical binding]; other site 983917012503 Switch I region; other site 983917012504 G2 box; other site 983917012505 G3 box; other site 983917012506 Switch II region; other site 983917012507 G4 box; other site 983917012508 G5 box; other site 983917012509 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 983917012510 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 983917012511 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 983917012512 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 983917012513 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 983917012514 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 983917012515 protein binding site [polypeptide binding]; other site 983917012516 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 983917012517 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 983917012518 anti-sigma E factor; Provisional; Region: rseB; PRK09455 983917012519 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 983917012520 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 983917012521 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917012522 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 983917012523 DNA binding residues [nucleotide binding] 983917012524 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 983917012525 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 983917012526 dimer interface [polypeptide binding]; other site 983917012527 active site 983917012528 acyl carrier protein; Provisional; Region: acpP; PRK00982 983917012529 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983917012530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917012531 NAD(P) binding site [chemical binding]; other site 983917012532 active site 983917012533 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 983917012534 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 983917012535 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 983917012536 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 983917012537 dimer interface [polypeptide binding]; other site 983917012538 active site 983917012539 CoA binding pocket [chemical binding]; other site 983917012540 putative phosphate acyltransferase; Provisional; Region: PRK05331 983917012541 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 983917012542 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 983917012543 Maf-like protein; Region: Maf; pfam02545 983917012544 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 983917012545 active site 983917012546 dimer interface [polypeptide binding]; other site 983917012547 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 983917012548 putative SAM binding site [chemical binding]; other site 983917012549 homodimer interface [polypeptide binding]; other site 983917012550 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917012551 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 983917012552 active site 983917012553 nucleotide binding site [chemical binding]; other site 983917012554 HIGH motif; other site 983917012555 KMSKS motif; other site 983917012556 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 983917012557 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 983917012558 putative substrate binding site [chemical binding]; other site 983917012559 putative ATP binding site [chemical binding]; other site 983917012560 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 983917012561 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983917012562 ATP binding site [chemical binding]; other site 983917012563 Mg++ binding site [ion binding]; other site 983917012564 motif III; other site 983917012565 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 983917012566 nucleotide binding region [chemical binding]; other site 983917012567 ATP-binding site [chemical binding]; other site 983917012568 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 983917012569 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 983917012570 Mg++ binding site [ion binding]; other site 983917012571 putative catalytic motif [active] 983917012572 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 983917012573 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 983917012574 SLBB domain; Region: SLBB; pfam10531 983917012575 SLBB domain; Region: SLBB; pfam10531 983917012576 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 983917012577 Chain length determinant protein; Region: Wzz; pfam02706 983917012578 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 983917012579 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 983917012580 Transcriptional regulators [Transcription]; Region: MarR; COG1846 983917012581 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 983917012582 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 983917012583 NADP-binding site; other site 983917012584 homotetramer interface [polypeptide binding]; other site 983917012585 substrate binding site [chemical binding]; other site 983917012586 homodimer interface [polypeptide binding]; other site 983917012587 active site 983917012588 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 983917012589 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 983917012590 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983917012591 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 983917012592 inhibitor-cofactor binding pocket; inhibition site 983917012593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917012594 catalytic residue [active] 983917012595 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 983917012596 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 983917012597 putative trimer interface [polypeptide binding]; other site 983917012598 putative CoA binding site [chemical binding]; other site 983917012599 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983917012600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917012601 NAD(P) binding site [chemical binding]; other site 983917012602 active site 983917012603 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 983917012604 AMP-binding enzyme; Region: AMP-binding; pfam00501 983917012605 active site 983917012606 CoA binding site [chemical binding]; other site 983917012607 AMP binding site [chemical binding]; other site 983917012608 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 983917012609 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 983917012610 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 983917012611 NAD(P) binding site [chemical binding]; other site 983917012612 catalytic residues [active] 983917012613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917012614 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 983917012615 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983917012616 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 983917012617 active site 983917012618 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 983917012619 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 983917012620 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 983917012621 putative active site [active] 983917012622 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 983917012623 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 983917012624 metal-binding site 983917012625 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 983917012626 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 983917012627 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 983917012628 substrate binding site; other site 983917012629 tetramer interface; other site 983917012630 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 983917012631 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 983917012632 NADP binding site [chemical binding]; other site 983917012633 active site 983917012634 putative substrate binding site [chemical binding]; other site 983917012635 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 983917012636 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 983917012637 NAD binding site [chemical binding]; other site 983917012638 substrate binding site [chemical binding]; other site 983917012639 homodimer interface [polypeptide binding]; other site 983917012640 active site 983917012641 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 983917012642 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 983917012643 Substrate binding site; other site 983917012644 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 983917012645 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 983917012646 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 983917012647 NAD(P) binding site [chemical binding]; other site 983917012648 homodimer interface [polypeptide binding]; other site 983917012649 substrate binding site [chemical binding]; other site 983917012650 active site 983917012651 Bacterial sugar transferase; Region: Bac_transf; pfam02397 983917012652 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 983917012653 putative active site [active] 983917012654 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983917012655 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 983917012656 inhibitor-cofactor binding pocket; inhibition site 983917012657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917012658 catalytic residue [active] 983917012659 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 983917012660 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 983917012661 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 983917012662 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 983917012663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983917012664 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 983917012665 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 983917012666 trimer interface [polypeptide binding]; other site 983917012667 active site 983917012668 substrate binding site [chemical binding]; other site 983917012669 CoA binding site [chemical binding]; other site 983917012670 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 983917012671 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983917012672 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 983917012673 inhibitor-cofactor binding pocket; inhibition site 983917012674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917012675 catalytic residue [active] 983917012676 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 983917012677 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 983917012678 putative trimer interface [polypeptide binding]; other site 983917012679 putative active site [active] 983917012680 putative substrate binding site [chemical binding]; other site 983917012681 putative CoA binding site [chemical binding]; other site 983917012682 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 983917012683 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 983917012684 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 983917012685 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 983917012686 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 983917012687 dimer interface [polypeptide binding]; other site 983917012688 putative anticodon binding site; other site 983917012689 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 983917012690 motif 1; other site 983917012691 active site 983917012692 motif 2; other site 983917012693 motif 3; other site 983917012694 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 983917012695 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 983917012696 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 983917012697 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 983917012698 NADP-binding site; other site 983917012699 homotetramer interface [polypeptide binding]; other site 983917012700 substrate binding site [chemical binding]; other site 983917012701 homodimer interface [polypeptide binding]; other site 983917012702 active site 983917012703 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 983917012704 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 983917012705 NADP binding site [chemical binding]; other site 983917012706 active site 983917012707 putative substrate binding site [chemical binding]; other site 983917012708 enoyl-CoA hydratase; Provisional; Region: PRK05862 983917012709 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 983917012710 substrate binding site [chemical binding]; other site 983917012711 oxyanion hole (OAH) forming residues; other site 983917012712 trimer interface [polypeptide binding]; other site 983917012713 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 983917012714 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 983917012715 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 983917012716 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 983917012717 protein binding site [polypeptide binding]; other site 983917012718 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 983917012719 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 983917012720 dimerization domain [polypeptide binding]; other site 983917012721 dimer interface [polypeptide binding]; other site 983917012722 catalytic residues [active] 983917012723 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 983917012724 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 983917012725 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 983917012726 dimer interface [polypeptide binding]; other site 983917012727 substrate binding site [chemical binding]; other site 983917012728 ATP binding site [chemical binding]; other site 983917012729 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 983917012730 thiamine phosphate binding site [chemical binding]; other site 983917012731 active site 983917012732 pyrophosphate binding site [ion binding]; other site 983917012733 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 983917012734 substrate binding site [chemical binding]; other site 983917012735 multimerization interface [polypeptide binding]; other site 983917012736 ATP binding site [chemical binding]; other site 983917012737 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 983917012738 MOSC domain; Region: MOSC; pfam03473 983917012739 GTP-binding protein YchF; Reviewed; Region: PRK09601 983917012740 YchF GTPase; Region: YchF; cd01900 983917012741 G1 box; other site 983917012742 GTP/Mg2+ binding site [chemical binding]; other site 983917012743 Switch I region; other site 983917012744 G2 box; other site 983917012745 Switch II region; other site 983917012746 G3 box; other site 983917012747 G4 box; other site 983917012748 G5 box; other site 983917012749 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 983917012750 MASE1; Region: MASE1; cl17823 983917012751 CHASE domain; Region: CHASE; pfam03924 983917012752 PAS domain S-box; Region: sensory_box; TIGR00229 983917012753 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917012754 putative active site [active] 983917012755 heme pocket [chemical binding]; other site 983917012756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917012757 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917012758 dimer interface [polypeptide binding]; other site 983917012759 phosphorylation site [posttranslational modification] 983917012760 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917012761 ATP binding site [chemical binding]; other site 983917012762 Mg2+ binding site [ion binding]; other site 983917012763 G-X-G motif; other site 983917012764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012765 Response regulator receiver domain; Region: Response_reg; pfam00072 983917012766 active site 983917012767 phosphorylation site [posttranslational modification] 983917012768 intermolecular recognition site; other site 983917012769 dimerization interface [polypeptide binding]; other site 983917012770 Predicted transcriptional regulators [Transcription]; Region: COG1510 983917012771 MarR family; Region: MarR_2; cl17246 983917012772 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 983917012773 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 983917012774 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 983917012775 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983917012776 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 983917012777 DNA binding residues [nucleotide binding] 983917012778 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 983917012779 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 983917012780 Cu(I) binding site [ion binding]; other site 983917012781 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 983917012782 UbiA prenyltransferase family; Region: UbiA; pfam01040 983917012783 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 983917012784 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 983917012785 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 983917012786 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 983917012787 Subunit III/VIIa interface [polypeptide binding]; other site 983917012788 Phospholipid binding site [chemical binding]; other site 983917012789 Subunit I/III interface [polypeptide binding]; other site 983917012790 Subunit III/VIb interface [polypeptide binding]; other site 983917012791 Subunit III/VIa interface; other site 983917012792 Subunit III/Vb interface [polypeptide binding]; other site 983917012793 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 983917012794 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 983917012795 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 983917012796 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 983917012797 Subunit I/III interface [polypeptide binding]; other site 983917012798 D-pathway; other site 983917012799 Subunit I/VIIc interface [polypeptide binding]; other site 983917012800 Subunit I/IV interface [polypeptide binding]; other site 983917012801 Subunit I/II interface [polypeptide binding]; other site 983917012802 Low-spin heme (heme a) binding site [chemical binding]; other site 983917012803 Subunit I/VIIa interface [polypeptide binding]; other site 983917012804 Subunit I/VIa interface [polypeptide binding]; other site 983917012805 Dimer interface; other site 983917012806 Putative water exit pathway; other site 983917012807 Binuclear center (heme a3/CuB) [ion binding]; other site 983917012808 K-pathway; other site 983917012809 Subunit I/Vb interface [polypeptide binding]; other site 983917012810 Putative proton exit pathway; other site 983917012811 Subunit I/VIb interface; other site 983917012812 Subunit I/VIc interface [polypeptide binding]; other site 983917012813 Electron transfer pathway; other site 983917012814 Subunit I/VIIIb interface [polypeptide binding]; other site 983917012815 Subunit I/VIIb interface [polypeptide binding]; other site 983917012816 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 983917012817 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 983917012818 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 983917012819 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 983917012820 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 983917012821 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 983917012822 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 983917012823 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 983917012824 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 983917012825 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 983917012826 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 983917012827 preprotein translocase subunit SecB; Validated; Region: PRK05751 983917012828 SecA binding site; other site 983917012829 Preprotein binding site; other site 983917012830 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 983917012831 GSH binding site [chemical binding]; other site 983917012832 catalytic residues [active] 983917012833 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 983917012834 active site residue [active] 983917012835 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 983917012836 catalytic core [active] 983917012837 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 983917012838 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK00934 983917012839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917012840 active site 983917012841 thymidine phosphorylase; Provisional; Region: PRK04350 983917012842 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 983917012843 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 983917012844 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 983917012845 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 983917012846 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 983917012847 putative acyl-acceptor binding pocket; other site 983917012848 dihydroorotase; Provisional; Region: PRK07627 983917012849 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 983917012850 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 983917012851 active site 983917012852 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 983917012853 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 983917012854 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 983917012855 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917012856 active site 983917012857 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 983917012858 hypothetical protein; Validated; Region: PRK00228 983917012859 DNA photolyase; Region: DNA_photolyase; pfam00875 983917012860 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 983917012861 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 983917012862 dimerization interface [polypeptide binding]; other site 983917012863 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917012864 dimer interface [polypeptide binding]; other site 983917012865 putative CheW interface [polypeptide binding]; other site 983917012866 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917012867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917012868 metal binding site [ion binding]; metal-binding site 983917012869 active site 983917012870 I-site; other site 983917012871 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 983917012872 putative binding surface; other site 983917012873 active site 983917012874 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 983917012875 putative binding surface; other site 983917012876 active site 983917012877 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 983917012878 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917012879 ATP binding site [chemical binding]; other site 983917012880 Mg2+ binding site [ion binding]; other site 983917012881 G-X-G motif; other site 983917012882 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 983917012883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012884 Response regulator receiver domain; Region: Response_reg; pfam00072 983917012885 active site 983917012886 phosphorylation site [posttranslational modification] 983917012887 intermolecular recognition site; other site 983917012888 dimerization interface [polypeptide binding]; other site 983917012889 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917012890 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917012891 dimer interface [polypeptide binding]; other site 983917012892 putative CheW interface [polypeptide binding]; other site 983917012893 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 983917012894 Response regulator receiver domain; Region: Response_reg; pfam00072 983917012895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012896 active site 983917012897 phosphorylation site [posttranslational modification] 983917012898 intermolecular recognition site; other site 983917012899 dimerization interface [polypeptide binding]; other site 983917012900 Response regulator receiver domain; Region: Response_reg; pfam00072 983917012901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012902 active site 983917012903 phosphorylation site [posttranslational modification] 983917012904 intermolecular recognition site; other site 983917012905 dimerization interface [polypeptide binding]; other site 983917012906 Rubredoxin [Energy production and conversion]; Region: COG1773 983917012907 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 983917012908 iron binding site [ion binding]; other site 983917012909 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 983917012910 substrate binding site [chemical binding]; other site 983917012911 ATP binding site [chemical binding]; other site 983917012912 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 983917012913 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 983917012914 inhibitor-cofactor binding pocket; inhibition site 983917012915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917012916 catalytic residue [active] 983917012917 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917012918 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917012919 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 983917012920 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983917012921 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983917012922 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983917012923 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 983917012924 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917012925 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 983917012926 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 983917012927 NAD(P) binding site [chemical binding]; other site 983917012928 homotetramer interface [polypeptide binding]; other site 983917012929 homodimer interface [polypeptide binding]; other site 983917012930 active site 983917012931 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 983917012932 RNB domain; Region: RNB; pfam00773 983917012933 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 983917012934 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 983917012935 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 983917012936 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 983917012937 shikimate binding site; other site 983917012938 NAD(P) binding site [chemical binding]; other site 983917012939 Transglycosylase; Region: Transgly; cl17702 983917012940 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 983917012941 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 983917012942 catalytic residues [active] 983917012943 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 983917012944 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 983917012945 carboxyltransferase (CT) interaction site; other site 983917012946 biotinylation site [posttranslational modification]; other site 983917012947 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 983917012948 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917012949 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 983917012950 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 983917012951 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 983917012952 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 983917012953 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 983917012954 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 983917012955 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 983917012956 substrate binding site [chemical binding]; other site 983917012957 ATP binding site [chemical binding]; other site 983917012958 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 983917012959 dimer interface [polypeptide binding]; other site 983917012960 putative radical transfer pathway; other site 983917012961 diiron center [ion binding]; other site 983917012962 tyrosyl radical; other site 983917012963 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 983917012964 ATP cone domain; Region: ATP-cone; pfam03477 983917012965 Class I ribonucleotide reductase; Region: RNR_I; cd01679 983917012966 active site 983917012967 dimer interface [polypeptide binding]; other site 983917012968 catalytic residues [active] 983917012969 effector binding site; other site 983917012970 R2 peptide binding site; other site 983917012971 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; cl02712 983917012972 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 983917012973 substrate binding site [chemical binding]; other site 983917012974 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 983917012975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917012976 active site 983917012977 phosphorylation site [posttranslational modification] 983917012978 intermolecular recognition site; other site 983917012979 dimerization interface [polypeptide binding]; other site 983917012980 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 983917012981 Walker A motif; other site 983917012982 ATP binding site [chemical binding]; other site 983917012983 Walker B motif; other site 983917012984 arginine finger; other site 983917012985 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917012986 sensory histidine kinase AtoS; Provisional; Region: PRK11360 983917012987 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917012988 dimer interface [polypeptide binding]; other site 983917012989 phosphorylation site [posttranslational modification] 983917012990 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917012991 ATP binding site [chemical binding]; other site 983917012992 Mg2+ binding site [ion binding]; other site 983917012993 G-X-G motif; other site 983917012994 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 983917012995 signal recognition particle protein; Provisional; Region: PRK10867 983917012996 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 983917012997 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 983917012998 GTP binding site [chemical binding]; other site 983917012999 Signal peptide binding domain; Region: SRP_SPB; pfam02978 983917013000 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 983917013001 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 983917013002 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 983917013003 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 983917013004 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 983917013005 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 983917013006 FeS/SAM binding site; other site 983917013007 TRAM domain; Region: TRAM; pfam01938 983917013008 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 983917013009 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 983917013010 tRNA; other site 983917013011 putative tRNA binding site [nucleotide binding]; other site 983917013012 putative NADP binding site [chemical binding]; other site 983917013013 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 983917013014 peptide chain release factor 1; Validated; Region: prfA; PRK00591 983917013015 This domain is found in peptide chain release factors; Region: PCRF; smart00937 983917013016 RF-1 domain; Region: RF-1; pfam00472 983917013017 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 983917013018 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 983917013019 S-adenosylmethionine binding site [chemical binding]; other site 983917013020 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 983917013021 putative GSH binding site [chemical binding]; other site 983917013022 catalytic residues [active] 983917013023 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 983917013024 Flavoprotein; Region: Flavoprotein; pfam02441 983917013025 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 983917013026 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 983917013027 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983917013028 catalytic residue [active] 983917013029 prolyl-tRNA synthetase; Provisional; Region: PRK09194 983917013030 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 983917013031 dimer interface [polypeptide binding]; other site 983917013032 motif 1; other site 983917013033 active site 983917013034 motif 2; other site 983917013035 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 983917013036 putative deacylase active site [active] 983917013037 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 983917013038 active site 983917013039 motif 3; other site 983917013040 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 983917013041 anticodon binding site; other site 983917013042 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 983917013043 putative active site [active] 983917013044 Ap4A binding site [chemical binding]; other site 983917013045 nudix motif; other site 983917013046 putative metal binding site [ion binding]; other site 983917013047 gamma-glutamyl kinase; Provisional; Region: PRK05429 983917013048 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 983917013049 nucleotide binding site [chemical binding]; other site 983917013050 homotetrameric interface [polypeptide binding]; other site 983917013051 putative phosphate binding site [ion binding]; other site 983917013052 putative allosteric binding site; other site 983917013053 PUA domain; Region: PUA; pfam01472 983917013054 GTPase CgtA; Reviewed; Region: obgE; PRK12299 983917013055 GTP1/OBG; Region: GTP1_OBG; pfam01018 983917013056 Obg GTPase; Region: Obg; cd01898 983917013057 G1 box; other site 983917013058 GTP/Mg2+ binding site [chemical binding]; other site 983917013059 Switch I region; other site 983917013060 G2 box; other site 983917013061 G3 box; other site 983917013062 Switch II region; other site 983917013063 G4 box; other site 983917013064 G5 box; other site 983917013065 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 983917013066 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 983917013067 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 983917013068 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 983917013069 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 983917013070 substrate binding pocket [chemical binding]; other site 983917013071 chain length determination region; other site 983917013072 substrate-Mg2+ binding site; other site 983917013073 catalytic residues [active] 983917013074 aspartate-rich region 1; other site 983917013075 active site lid residues [active] 983917013076 aspartate-rich region 2; other site 983917013077 CHASE3 domain; Region: CHASE3; cl05000 983917013078 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 983917013079 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 983917013080 HAMP domain; Region: HAMP; pfam00672 983917013081 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917013082 dimer interface [polypeptide binding]; other site 983917013083 putative CheW interface [polypeptide binding]; other site 983917013084 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 983917013085 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 983917013086 Chromate transporter; Region: Chromate_transp; pfam02417 983917013087 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 983917013088 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 983917013089 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 983917013090 Walker A motif; other site 983917013091 ATP binding site [chemical binding]; other site 983917013092 Walker B motif; other site 983917013093 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 983917013094 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 983917013095 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 983917013096 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 983917013097 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 983917013098 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 983917013099 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 983917013100 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 983917013101 CoA-binding site [chemical binding]; other site 983917013102 ATP-binding [chemical binding]; other site 983917013103 hypothetical protein; Provisional; Region: PRK05287 983917013104 Domain of unknown function (DUF329); Region: DUF329; pfam03884 983917013105 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 983917013106 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 983917013107 FeS/SAM binding site; other site 983917013108 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 983917013109 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 983917013110 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 983917013111 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 983917013112 NifZ domain; Region: NifZ; pfam04319 983917013113 NifZ domain; Region: NifZ; pfam04319 983917013114 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 983917013115 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 983917013116 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 983917013117 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917013118 catalytic residue [active] 983917013119 NifT/FixU protein; Region: NifT; pfam06988 983917013120 SIR2-like domain; Region: SIR2_2; pfam13289 983917013121 Transposase domain (DUF772); Region: DUF772; pfam05598 983917013122 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 983917013123 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983917013124 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 983917013125 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 983917013126 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 983917013127 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 983917013128 Nucleotide-binding sites [chemical binding]; other site 983917013129 Walker A motif; other site 983917013130 Switch I region of nucleotide binding site; other site 983917013131 Fe4S4 binding sites [ion binding]; other site 983917013132 Switch II region of nucleotide binding site; other site 983917013133 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 983917013134 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 983917013135 MoFe protein alpha/beta subunit interactions; other site 983917013136 Alpha subunit P cluster binding residues; other site 983917013137 FeMoco binding residues [chemical binding]; other site 983917013138 MoFe protein alpha subunit/Fe protein contacts; other site 983917013139 MoFe protein dimer/ dimer interactions; other site 983917013140 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 983917013141 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 983917013142 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 983917013143 MoFe protein beta/alpha subunit interactions; other site 983917013144 Beta subunit P cluster binding residues; other site 983917013145 MoFe protein beta subunit/Fe protein contacts; other site 983917013146 MoFe protein dimer/ dimer interactions; other site 983917013147 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 983917013148 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 983917013149 ligand binding site [chemical binding]; other site 983917013150 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917013151 PAS domain; Region: PAS; smart00091 983917013152 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917013153 dimer interface [polypeptide binding]; other site 983917013154 phosphorylation site [posttranslational modification] 983917013155 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917013156 ATP binding site [chemical binding]; other site 983917013157 Mg2+ binding site [ion binding]; other site 983917013158 G-X-G motif; other site 983917013159 Response regulator receiver domain; Region: Response_reg; pfam00072 983917013160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013161 active site 983917013162 phosphorylation site [posttranslational modification] 983917013163 intermolecular recognition site; other site 983917013164 dimerization interface [polypeptide binding]; other site 983917013165 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 983917013166 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 983917013167 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 983917013168 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 983917013169 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 983917013170 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 983917013171 probable nitrogen fixation protein; Region: TIGR02935 983917013172 Rop-like; Region: Rop-like; cl02247 983917013173 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 983917013174 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 983917013175 NifQ; Region: NifQ; pfam04891 983917013176 cysteine desulfurase; Provisional; Region: PRK14012 983917013177 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 983917013178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983917013179 catalytic residue [active] 983917013180 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 983917013181 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 983917013182 trimerization site [polypeptide binding]; other site 983917013183 active site 983917013184 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 983917013185 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 983917013186 chaperone protein HscA; Provisional; Region: hscA; PRK05183 983917013187 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 983917013188 nucleotide binding site [chemical binding]; other site 983917013189 putative NEF/HSP70 interaction site [polypeptide binding]; other site 983917013190 SBD interface [polypeptide binding]; other site 983917013191 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 983917013192 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 983917013193 catalytic loop [active] 983917013194 iron binding site [ion binding]; other site 983917013195 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 983917013196 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 983917013197 active site 983917013198 catalytic residues [active] 983917013199 metal binding site [ion binding]; metal-binding site 983917013200 Nitrogen fixation protein NifW; Region: NifW; pfam03206 983917013201 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 983917013202 Ligand binding site [chemical binding]; other site 983917013203 Electron transfer flavoprotein domain; Region: ETF; pfam01012 983917013204 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 983917013205 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 983917013206 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 983917013207 oxidoreductase; Provisional; Region: PRK10015 983917013208 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917013209 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 983917013210 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 983917013211 diiron binding motif [ion binding]; other site 983917013212 Nif-specific regulatory protein; Region: nifA; TIGR01817 983917013213 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 983917013214 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 983917013215 Walker A motif; other site 983917013216 ATP binding site [chemical binding]; other site 983917013217 Walker B motif; other site 983917013218 arginine finger; other site 983917013219 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 983917013220 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 983917013221 oligomerisation interface [polypeptide binding]; other site 983917013222 mobile loop; other site 983917013223 roof hairpin; other site 983917013224 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 983917013225 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 983917013226 ring oligomerisation interface [polypeptide binding]; other site 983917013227 ATP/Mg binding site [chemical binding]; other site 983917013228 stacking interactions; other site 983917013229 hinge regions; other site 983917013230 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 983917013231 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 983917013232 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 983917013233 G1 box; other site 983917013234 GTP/Mg2+ binding site [chemical binding]; other site 983917013235 Switch I region; other site 983917013236 G2 box; other site 983917013237 G3 box; other site 983917013238 Switch II region; other site 983917013239 G4 box; other site 983917013240 G5 box; other site 983917013241 Cytochrome c553 [Energy production and conversion]; Region: COG2863 983917013242 Cytochrome c; Region: Cytochrom_C; cl11414 983917013243 TMAO/DMSO reductase; Reviewed; Region: PRK05363 983917013244 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 983917013245 Moco binding site; other site 983917013246 metal coordination site [ion binding]; other site 983917013247 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 983917013248 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 983917013249 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 983917013250 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 983917013251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917013252 Walker A/P-loop; other site 983917013253 ATP binding site [chemical binding]; other site 983917013254 Q-loop/lid; other site 983917013255 ABC transporter signature motif; other site 983917013256 Walker B; other site 983917013257 D-loop; other site 983917013258 H-loop/switch region; other site 983917013259 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 983917013260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917013261 Walker A/P-loop; other site 983917013262 ATP binding site [chemical binding]; other site 983917013263 Q-loop/lid; other site 983917013264 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 983917013265 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 983917013266 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 983917013267 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 983917013268 putative ligand binding site [chemical binding]; other site 983917013269 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 983917013270 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 983917013271 malonyl-CoA synthase; Validated; Region: PRK07514 983917013272 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 983917013273 acyl-activating enzyme (AAE) consensus motif; other site 983917013274 active site 983917013275 AMP binding site [chemical binding]; other site 983917013276 CoA binding site [chemical binding]; other site 983917013277 Domain of unknown function DUF59; Region: DUF59; cl00941 983917013278 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 983917013279 putative substrate translocation pore; other site 983917013280 PAS domain; Region: PAS_9; pfam13426 983917013281 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 983917013282 active site 983917013283 catalytic site [active] 983917013284 substrate binding site [chemical binding]; other site 983917013285 Response regulator receiver domain; Region: Response_reg; pfam00072 983917013286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013287 active site 983917013288 phosphorylation site [posttranslational modification] 983917013289 intermolecular recognition site; other site 983917013290 dimerization interface [polypeptide binding]; other site 983917013291 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 983917013292 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 983917013293 metal binding triad; other site 983917013294 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 983917013295 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 983917013296 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 983917013297 Na binding site [ion binding]; other site 983917013298 Protein of unknown function, DUF485; Region: DUF485; pfam04341 983917013299 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 983917013300 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 983917013301 putative catalytic residue [active] 983917013302 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 983917013303 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 983917013304 putative deacylase active site [active] 983917013305 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 983917013306 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 983917013307 active site 983917013308 catalytic residues [active] 983917013309 metal binding site [ion binding]; metal-binding site 983917013310 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 983917013311 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983917013312 ATP-grasp domain; Region: ATP-grasp_4; cl17255 983917013313 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 983917013314 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 983917013315 carboxyltransferase (CT) interaction site; other site 983917013316 biotinylation site [posttranslational modification]; other site 983917013317 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 983917013318 enoyl-CoA hydratase; Provisional; Region: PRK05995 983917013319 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 983917013320 substrate binding site [chemical binding]; other site 983917013321 oxyanion hole (OAH) forming residues; other site 983917013322 trimer interface [polypeptide binding]; other site 983917013323 DinB family; Region: DinB; cl17821 983917013324 DinB superfamily; Region: DinB_2; pfam12867 983917013325 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 983917013326 Predicted membrane protein [Function unknown]; Region: COG3235 983917013327 Cation transport protein; Region: TrkH; cl17365 983917013328 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 983917013329 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 983917013330 TrkA-N domain; Region: TrkA_N; pfam02254 983917013331 TrkA-N domain; Region: TrkA_N; pfam02254 983917013332 TrkA-C domain; Region: TrkA_C; pfam02080 983917013333 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 983917013334 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 983917013335 G1 box; other site 983917013336 GTP/Mg2+ binding site [chemical binding]; other site 983917013337 G2 box; other site 983917013338 Switch I region; other site 983917013339 G3 box; other site 983917013340 Switch II region; other site 983917013341 G4 box; other site 983917013342 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 983917013343 active site 983917013344 catalytic site [active] 983917013345 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 983917013346 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 983917013347 dimer interface [polypeptide binding]; other site 983917013348 active site 983917013349 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 983917013350 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 983917013351 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 983917013352 active site clefts [active] 983917013353 zinc binding site [ion binding]; other site 983917013354 dimer interface [polypeptide binding]; other site 983917013355 isovaleryl-CoA dehydrogenase; Region: PLN02519 983917013356 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 983917013357 substrate binding site [chemical binding]; other site 983917013358 FAD binding site [chemical binding]; other site 983917013359 catalytic base [active] 983917013360 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 983917013361 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 983917013362 DNA binding residues [nucleotide binding] 983917013363 putative dimer interface [polypeptide binding]; other site 983917013364 Protein of unknown function DUF45; Region: DUF45; pfam01863 983917013365 Transcriptional regulators [Transcription]; Region: GntR; COG1802 983917013366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983917013367 DNA-binding site [nucleotide binding]; DNA binding site 983917013368 FCD domain; Region: FCD; pfam07729 983917013369 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 983917013370 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 983917013371 dimer interface [polypeptide binding]; other site 983917013372 conserved gate region; other site 983917013373 ABC-ATPase subunit interface; other site 983917013374 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 983917013375 dimer interface [polypeptide binding]; other site 983917013376 conserved gate region; other site 983917013377 putative PBP binding loops; other site 983917013378 ABC-ATPase subunit interface; other site 983917013379 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 983917013380 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 983917013381 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 983917013382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917013383 Walker A/P-loop; other site 983917013384 ATP binding site [chemical binding]; other site 983917013385 Q-loop/lid; other site 983917013386 ABC transporter signature motif; other site 983917013387 Walker B; other site 983917013388 D-loop; other site 983917013389 H-loop/switch region; other site 983917013390 TOBE domain; Region: TOBE_2; pfam08402 983917013391 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 983917013392 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 983917013393 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 983917013394 putative acyl-acceptor binding pocket; other site 983917013395 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 983917013396 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 983917013397 active site 983917013398 motif I; other site 983917013399 motif II; other site 983917013400 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 983917013401 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 983917013402 dimer interface [polypeptide binding]; other site 983917013403 motif 1; other site 983917013404 active site 983917013405 motif 2; other site 983917013406 motif 3; other site 983917013407 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 983917013408 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 983917013409 putative active site [active] 983917013410 catalytic triad [active] 983917013411 putative dimer interface [polypeptide binding]; other site 983917013412 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 983917013413 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 983917013414 Transporter associated domain; Region: CorC_HlyC; smart01091 983917013415 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 983917013416 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 983917013417 P-loop, Walker A motif; other site 983917013418 Base recognition motif; other site 983917013419 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 983917013420 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 983917013421 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 983917013422 active site 983917013423 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 983917013424 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 983917013425 Walker A motif; other site 983917013426 ATP binding site [chemical binding]; other site 983917013427 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 983917013428 Walker B motif; other site 983917013429 arginine finger; other site 983917013430 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 983917013431 pantothenate kinase; Reviewed; Region: PRK13329 983917013432 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 983917013433 B12 binding site [chemical binding]; other site 983917013434 cobalt ligand [ion binding]; other site 983917013435 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 983917013436 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 983917013437 CcdB protein; Region: CcdB; cl03380 983917013438 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 983917013439 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 983917013440 binding surface 983917013441 TPR motif; other site 983917013442 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 983917013443 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917013444 metal binding site [ion binding]; metal-binding site 983917013445 active site 983917013446 I-site; other site 983917013447 AMP nucleosidase; Provisional; Region: PRK08292 983917013448 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 983917013449 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 983917013450 Outer membrane efflux protein; Region: OEP; pfam02321 983917013451 Outer membrane efflux protein; Region: OEP; pfam02321 983917013452 HlyD family secretion protein; Region: HlyD_2; pfam12700 983917013453 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917013454 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917013455 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983917013456 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917013457 Walker A/P-loop; other site 983917013458 ATP binding site [chemical binding]; other site 983917013459 Q-loop/lid; other site 983917013460 ABC transporter signature motif; other site 983917013461 Walker B; other site 983917013462 D-loop; other site 983917013463 H-loop/switch region; other site 983917013464 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 983917013465 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917013466 FtsX-like permease family; Region: FtsX; pfam02687 983917013467 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 983917013468 elongation factor G; Reviewed; Region: PRK12740 983917013469 G1 box; other site 983917013470 putative GEF interaction site [polypeptide binding]; other site 983917013471 GTP/Mg2+ binding site [chemical binding]; other site 983917013472 Switch I region; other site 983917013473 G2 box; other site 983917013474 G3 box; other site 983917013475 Switch II region; other site 983917013476 G4 box; other site 983917013477 G5 box; other site 983917013478 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 983917013479 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 983917013480 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 983917013481 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 983917013482 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 983917013483 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 983917013484 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 983917013485 N-terminal plug; other site 983917013486 ligand-binding site [chemical binding]; other site 983917013487 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 983917013488 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 983917013489 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 983917013490 active site 983917013491 substrate binding site [chemical binding]; other site 983917013492 FMN binding site [chemical binding]; other site 983917013493 putative catalytic residues [active] 983917013494 HDOD domain; Region: HDOD; pfam08668 983917013495 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917013496 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 983917013497 dimerization interface [polypeptide binding]; other site 983917013498 putative DNA binding site [nucleotide binding]; other site 983917013499 putative Zn2+ binding site [ion binding]; other site 983917013500 AsnC family; Region: AsnC_trans_reg; pfam01037 983917013501 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 983917013502 cofactor binding site; other site 983917013503 metal binding site [ion binding]; metal-binding site 983917013504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983917013505 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 983917013506 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 983917013507 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 983917013508 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 983917013509 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 983917013510 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 983917013511 dimerization domain swap beta strand [polypeptide binding]; other site 983917013512 regulatory protein interface [polypeptide binding]; other site 983917013513 active site 983917013514 regulatory phosphorylation site [posttranslational modification]; other site 983917013515 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 983917013516 active pocket/dimerization site; other site 983917013517 active site 983917013518 phosphorylation site [posttranslational modification] 983917013519 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 983917013520 CoA-transferase family III; Region: CoA_transf_3; pfam02515 983917013521 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 983917013522 lipoyl synthase; Provisional; Region: PRK05481 983917013523 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 983917013524 FeS/SAM binding site; other site 983917013525 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 983917013526 Protein of unknown function (DUF493); Region: DUF493; cl01102 983917013527 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 983917013528 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 983917013529 homodimer interface [polypeptide binding]; other site 983917013530 substrate-cofactor binding pocket; other site 983917013531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983917013532 catalytic residue [active] 983917013533 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 983917013534 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 983917013535 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 983917013536 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 983917013537 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917013538 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 983917013539 dimer interface [polypeptide binding]; other site 983917013540 [2Fe-2S] cluster binding site [ion binding]; other site 983917013541 VanZ like family; Region: VanZ; cl01971 983917013542 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 983917013543 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 983917013544 dimer interface [polypeptide binding]; other site 983917013545 allosteric magnesium binding site [ion binding]; other site 983917013546 active site 983917013547 aspartate-rich active site metal binding site; other site 983917013548 Schiff base residues; other site 983917013549 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 983917013550 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 983917013551 oligomer interface [polypeptide binding]; other site 983917013552 metal binding site [ion binding]; metal-binding site 983917013553 metal binding site [ion binding]; metal-binding site 983917013554 putative Cl binding site [ion binding]; other site 983917013555 aspartate ring; other site 983917013556 basic sphincter; other site 983917013557 hydrophobic gate; other site 983917013558 periplasmic entrance; other site 983917013559 EamA-like transporter family; Region: EamA; pfam00892 983917013560 EamA-like transporter family; Region: EamA; pfam00892 983917013561 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 983917013562 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 983917013563 PhoH-like protein; Region: PhoH; pfam02562 983917013564 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 983917013565 Histidine kinase; Region: HisKA_3; pfam07730 983917013566 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917013567 ATP binding site [chemical binding]; other site 983917013568 Mg2+ binding site [ion binding]; other site 983917013569 G-X-G motif; other site 983917013570 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983917013571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013572 active site 983917013573 phosphorylation site [posttranslational modification] 983917013574 intermolecular recognition site; other site 983917013575 dimerization interface [polypeptide binding]; other site 983917013576 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 983917013577 DNA binding residues [nucleotide binding] 983917013578 dimerization interface [polypeptide binding]; other site 983917013579 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 983917013580 RuvA N terminal domain; Region: RuvA_N; pfam01330 983917013581 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 983917013582 Protein of unknown function (DUF461); Region: DUF461; pfam04314 983917013583 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 983917013584 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 983917013585 Walker A motif; other site 983917013586 ATP binding site [chemical binding]; other site 983917013587 Walker B motif; other site 983917013588 arginine finger; other site 983917013589 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 983917013590 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 983917013591 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 983917013592 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 983917013593 catalytic core [active] 983917013594 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 983917013595 substrate binding site [chemical binding]; other site 983917013596 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 983917013597 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 983917013598 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 983917013599 PAS domain; Region: PAS_9; pfam13426 983917013600 PAS fold; Region: PAS_7; pfam12860 983917013601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 983917013602 metal binding site [ion binding]; metal-binding site 983917013603 active site 983917013604 I-site; other site 983917013605 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 983917013606 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 983917013607 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917013608 Zn2+ binding site [ion binding]; other site 983917013609 Mg2+ binding site [ion binding]; other site 983917013610 Rhomboid family; Region: Rhomboid; cl11446 983917013611 recombination associated protein; Reviewed; Region: rdgC; PRK00321 983917013612 cobyric acid synthase; Provisional; Region: PRK00784 983917013613 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 983917013614 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 983917013615 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 983917013616 catalytic triad [active] 983917013617 cobyric acid synthase; Provisional; Region: PRK00784 983917013618 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 983917013619 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 983917013620 catalytic triad [active] 983917013621 Cysteine-rich small domain; Region: zf-like; cl00946 983917013622 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 983917013623 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 983917013624 Uncharacterized conserved protein [Function unknown]; Region: COG2966 983917013625 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 983917013626 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 983917013627 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917013628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917013629 dimer interface [polypeptide binding]; other site 983917013630 putative CheW interface [polypeptide binding]; other site 983917013631 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 983917013632 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 983917013633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917013634 dimer interface [polypeptide binding]; other site 983917013635 putative CheW interface [polypeptide binding]; other site 983917013636 Nidogen-like; Region: NIDO; cl02648 983917013637 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 983917013638 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 983917013639 Walker A motif; other site 983917013640 ATP binding site [chemical binding]; other site 983917013641 Walker B motif; other site 983917013642 arginine finger; other site 983917013643 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 983917013644 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 983917013645 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 983917013646 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 983917013647 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 983917013648 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 983917013649 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 983917013650 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 983917013651 homodimer interface [polypeptide binding]; other site 983917013652 Walker A motif; other site 983917013653 ATP binding site [chemical binding]; other site 983917013654 hydroxycobalamin binding site [chemical binding]; other site 983917013655 Walker B motif; other site 983917013656 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 983917013657 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 983917013658 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917013659 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 983917013660 N-terminal plug; other site 983917013661 ligand-binding site [chemical binding]; other site 983917013662 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 983917013663 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 983917013664 intersubunit interface [polypeptide binding]; other site 983917013665 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 983917013666 ABC-ATPase subunit interface; other site 983917013667 dimer interface [polypeptide binding]; other site 983917013668 putative PBP binding regions; other site 983917013669 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 983917013670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917013671 Walker A/P-loop; other site 983917013672 ATP binding site [chemical binding]; other site 983917013673 Q-loop/lid; other site 983917013674 ABC transporter signature motif; other site 983917013675 Walker B; other site 983917013676 D-loop; other site 983917013677 H-loop/switch region; other site 983917013678 Response regulator receiver domain; Region: Response_reg; pfam00072 983917013679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013680 active site 983917013681 phosphorylation site [posttranslational modification] 983917013682 intermolecular recognition site; other site 983917013683 dimerization interface [polypeptide binding]; other site 983917013684 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 983917013685 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 983917013686 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 983917013687 dimerization interface [polypeptide binding]; other site 983917013688 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917013689 putative active site [active] 983917013690 heme pocket [chemical binding]; other site 983917013691 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917013692 dimer interface [polypeptide binding]; other site 983917013693 phosphorylation site [posttranslational modification] 983917013694 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917013695 ATP binding site [chemical binding]; other site 983917013696 Mg2+ binding site [ion binding]; other site 983917013697 G-X-G motif; other site 983917013698 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 983917013699 16S rRNA methyltransferase B; Provisional; Region: PRK10901 983917013700 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 983917013701 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 983917013702 S-adenosylmethionine binding site [chemical binding]; other site 983917013703 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 983917013704 GTP cyclohydrolase I; Provisional; Region: PLN03044 983917013705 active site 983917013706 Sensors of blue-light using FAD; Region: BLUF; pfam04940 983917013707 LemA family; Region: LemA; cl00742 983917013708 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 983917013709 putative catalytic cysteine [active] 983917013710 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983917013711 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 983917013712 AsnC family; Region: AsnC_trans_reg; pfam01037 983917013713 LysE type translocator; Region: LysE; cl00565 983917013714 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 983917013715 DNA topoisomerase III; Validated; Region: PRK08173 983917013716 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 983917013717 active site 983917013718 putative interdomain interaction site [polypeptide binding]; other site 983917013719 putative metal-binding site [ion binding]; other site 983917013720 putative nucleotide binding site [chemical binding]; other site 983917013721 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 983917013722 domain I; other site 983917013723 DNA binding groove [nucleotide binding] 983917013724 phosphate binding site [ion binding]; other site 983917013725 domain II; other site 983917013726 domain III; other site 983917013727 nucleotide binding site [chemical binding]; other site 983917013728 catalytic site [active] 983917013729 domain IV; other site 983917013730 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 983917013731 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 983917013732 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 983917013733 Proteins containing SET domain [General function prediction only]; Region: COG2940 983917013734 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 983917013735 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 983917013736 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 983917013737 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 983917013738 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 983917013739 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 983917013740 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 983917013741 transketolase; Reviewed; Region: PRK12753 983917013742 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 983917013743 TPP-binding site [chemical binding]; other site 983917013744 dimer interface [polypeptide binding]; other site 983917013745 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 983917013746 PYR/PP interface [polypeptide binding]; other site 983917013747 dimer interface [polypeptide binding]; other site 983917013748 TPP binding site [chemical binding]; other site 983917013749 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983917013750 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 983917013751 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 983917013752 Substrate binding site; other site 983917013753 metal-binding site 983917013754 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 983917013755 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 983917013756 active site 983917013757 catalytic tetrad [active] 983917013758 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 983917013759 catalytic core [active] 983917013760 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 983917013761 hypothetical protein; Provisional; Region: PRK06996 983917013762 nitrilase; Region: PLN02798 983917013763 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 983917013764 putative active site [active] 983917013765 catalytic triad [active] 983917013766 dimer interface [polypeptide binding]; other site 983917013767 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 983917013768 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 983917013769 metal binding triad; other site 983917013770 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 983917013771 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 983917013772 metal binding triad [ion binding]; metal-binding site 983917013773 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 983917013774 EamA-like transporter family; Region: EamA; pfam00892 983917013775 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 983917013776 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 983917013777 Ligand binding site; other site 983917013778 Putative Catalytic site; other site 983917013779 DXD motif; other site 983917013780 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 983917013781 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 983917013782 dinuclear metal binding motif [ion binding]; other site 983917013783 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 983917013784 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 983917013785 DNA binding residues [nucleotide binding] 983917013786 B12 binding domain; Region: B12-binding_2; pfam02607 983917013787 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; cd02065 983917013788 B12 binding site [chemical binding]; other site 983917013789 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 983917013790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917013791 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 983917013792 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 983917013793 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 983917013794 S-adenosylmethionine binding site [chemical binding]; other site 983917013795 MFS/sugar transport protein; Region: MFS_2; pfam13347 983917013796 MFS/sugar transport protein; Region: MFS_2; pfam13347 983917013797 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 983917013798 short chain dehydrogenase; Provisional; Region: PRK06101 983917013799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917013800 NAD(P) binding site [chemical binding]; other site 983917013801 active site 983917013802 SnoaL-like domain; Region: SnoaL_2; pfam12680 983917013803 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 983917013804 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 983917013805 Cl binding site [ion binding]; other site 983917013806 oligomer interface [polypeptide binding]; other site 983917013807 HAMP domain; Region: HAMP; pfam00672 983917013808 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917013809 PAS domain; Region: PAS_9; pfam13426 983917013810 putative active site [active] 983917013811 heme pocket [chemical binding]; other site 983917013812 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917013813 PAS domain; Region: PAS_9; pfam13426 983917013814 putative active site [active] 983917013815 heme pocket [chemical binding]; other site 983917013816 PAS domain; Region: PAS_8; pfam13188 983917013817 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983917013818 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917013819 dimer interface [polypeptide binding]; other site 983917013820 phosphorylation site [posttranslational modification] 983917013821 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917013822 ATP binding site [chemical binding]; other site 983917013823 Mg2+ binding site [ion binding]; other site 983917013824 G-X-G motif; other site 983917013825 Response regulator receiver domain; Region: Response_reg; pfam00072 983917013826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013827 active site 983917013828 phosphorylation site [posttranslational modification] 983917013829 intermolecular recognition site; other site 983917013830 dimerization interface [polypeptide binding]; other site 983917013831 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917013832 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 983917013833 ATP binding site [chemical binding]; other site 983917013834 Mg2+ binding site [ion binding]; other site 983917013835 G-X-G motif; other site 983917013836 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 983917013837 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917013838 Response regulator receiver domain; Region: Response_reg; pfam00072 983917013839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013840 active site 983917013841 phosphorylation site [posttranslational modification] 983917013842 intermolecular recognition site; other site 983917013843 dimerization interface [polypeptide binding]; other site 983917013844 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 983917013845 DNA binding residues [nucleotide binding] 983917013846 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917013847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013848 active site 983917013849 phosphorylation site [posttranslational modification] 983917013850 intermolecular recognition site; other site 983917013851 dimerization interface [polypeptide binding]; other site 983917013852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983917013853 Zn2+ binding site [ion binding]; other site 983917013854 Mg2+ binding site [ion binding]; other site 983917013855 PAS domain S-box; Region: sensory_box; TIGR00229 983917013856 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917013857 putative active site [active] 983917013858 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917013859 PAS domain; Region: PAS_9; pfam13426 983917013860 putative active site [active] 983917013861 heme pocket [chemical binding]; other site 983917013862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917013863 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917013864 dimer interface [polypeptide binding]; other site 983917013865 phosphorylation site [posttranslational modification] 983917013866 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917013867 ATP binding site [chemical binding]; other site 983917013868 Mg2+ binding site [ion binding]; other site 983917013869 G-X-G motif; other site 983917013870 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 983917013871 30S subunit binding site; other site 983917013872 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 983917013873 active site 983917013874 phosphorylation site [posttranslational modification] 983917013875 HPr kinase/phosphorylase; Provisional; Region: PRK05428 983917013876 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 983917013877 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 983917013878 Hpr binding site; other site 983917013879 active site 983917013880 homohexamer subunit interaction site [polypeptide binding]; other site 983917013881 ferric uptake regulator; Provisional; Region: fur; PRK09462 983917013882 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 983917013883 metal binding site 2 [ion binding]; metal-binding site 983917013884 putative DNA binding helix; other site 983917013885 metal binding site 1 [ion binding]; metal-binding site 983917013886 dimer interface [polypeptide binding]; other site 983917013887 structural Zn2+ binding site [ion binding]; other site 983917013888 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 983917013889 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 983917013890 dihydrodipicolinate reductase; Provisional; Region: PRK00048 983917013891 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 983917013892 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 983917013893 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 983917013894 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 983917013895 TolR protein; Region: tolR; TIGR02801 983917013896 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 983917013897 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 983917013898 HIGH motif; other site 983917013899 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 983917013900 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983917013901 active site 983917013902 KMSKS motif; other site 983917013903 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 983917013904 tRNA binding surface [nucleotide binding]; other site 983917013905 Lipopolysaccharide-assembly; Region: LptE; pfam04390 983917013906 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 983917013907 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 983917013908 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 983917013909 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 983917013910 putative ligand binding site [chemical binding]; other site 983917013911 NAD binding site [chemical binding]; other site 983917013912 dimerization interface [polypeptide binding]; other site 983917013913 catalytic site [active] 983917013914 Competence-damaged protein; Region: CinA; pfam02464 983917013915 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 983917013916 tetramer interfaces [polypeptide binding]; other site 983917013917 binuclear metal-binding site [ion binding]; other site 983917013918 thiamine monophosphate kinase; Provisional; Region: PRK05731 983917013919 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 983917013920 ATP binding site [chemical binding]; other site 983917013921 dimerization interface [polypeptide binding]; other site 983917013922 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 983917013923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917013924 active site 983917013925 phosphorylation site [posttranslational modification] 983917013926 intermolecular recognition site; other site 983917013927 dimerization interface [polypeptide binding]; other site 983917013928 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 983917013929 DNA binding residues [nucleotide binding] 983917013930 dimerization interface [polypeptide binding]; other site 983917013931 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917013932 putative active site [active] 983917013933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917013934 heme pocket [chemical binding]; other site 983917013935 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917013936 dimer interface [polypeptide binding]; other site 983917013937 phosphorylation site [posttranslational modification] 983917013938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917013939 ATP binding site [chemical binding]; other site 983917013940 Mg2+ binding site [ion binding]; other site 983917013941 G-X-G motif; other site 983917013942 malic enzyme; Reviewed; Region: PRK12862 983917013943 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 983917013944 Malic enzyme, N-terminal domain; Region: malic; pfam00390 983917013945 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 983917013946 putative NAD(P) binding site [chemical binding]; other site 983917013947 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 983917013948 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 983917013949 active site 983917013950 barstar interaction site; other site 983917013951 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 983917013952 putative RNAase interaction site [polypeptide binding]; other site 983917013953 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 983917013954 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 983917013955 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 983917013956 SurA N-terminal domain; Region: SurA_N; pfam09312 983917013957 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 983917013958 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 983917013959 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 983917013960 Organic solvent tolerance protein; Region: OstA_C; pfam04453 983917013961 phosphotransferase family protein 983917013962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983917013963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917013964 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 983917013965 putative effector binding pocket; other site 983917013966 dimerization interface [polypeptide binding]; other site 983917013967 hypothetical protein; Provisional; Region: PRK07907 983917013968 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 983917013969 metal binding site [ion binding]; metal-binding site 983917013970 putative dimer interface [polypeptide binding]; other site 983917013971 enoyl-CoA hydratase; Provisional; Region: PRK06142 983917013972 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 983917013973 substrate binding site [chemical binding]; other site 983917013974 oxyanion hole (OAH) forming residues; other site 983917013975 trimer interface [polypeptide binding]; other site 983917013976 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 983917013977 CoA-transferase family III; Region: CoA_transf_3; pfam02515 983917013978 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 983917013979 S-adenosylmethionine binding site [chemical binding]; other site 983917013980 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 983917013981 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 983917013982 Helix-turn-helix domain; Region: HTH_18; pfam12833 983917013983 ethanolamine permease; Region: 2A0305; TIGR00908 983917013984 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 983917013985 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 983917013986 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 983917013987 putative glutathione S-transferase; Provisional; Region: PRK10357 983917013988 GST_N family, unknown subfamily 3; 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_3; cd03049 983917013989 putative C-terminal domain interface [polypeptide binding]; other site 983917013990 putative GSH binding site (G-site) [chemical binding]; other site 983917013991 putative dimer interface [polypeptide binding]; other site 983917013992 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 983917013993 dimer interface [polypeptide binding]; other site 983917013994 N-terminal domain interface [polypeptide binding]; other site 983917013995 putative substrate binding pocket (H-site) [chemical binding]; other site 983917013996 cytosine deaminase; Validated; Region: PRK07572 983917013997 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 983917013998 active site 983917013999 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917014000 active site 983917014001 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 983917014002 hypothetical protein; Validated; Region: PRK07198 983917014003 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 983917014004 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 983917014005 dimerization interface [polypeptide binding]; other site 983917014006 active site 983917014007 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983917014008 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 983917014009 N-terminal plug; other site 983917014010 ligand-binding site [chemical binding]; other site 983917014011 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 983917014012 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 983917014013 ligand binding site [chemical binding]; other site 983917014014 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 983917014015 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 983917014016 FeS/SAM binding site; other site 983917014017 SynChlorMet cassette radical SAM/SPASM protein ScmE; Region: SCM_rSAM_ScmE; TIGR04250 983917014018 adenosine deaminase; Provisional; Region: PRK09358 983917014019 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 983917014020 active site 983917014021 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 983917014022 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 983917014023 ligand binding site [chemical binding]; other site 983917014024 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 983917014025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 983917014026 Walker A/P-loop; other site 983917014027 ATP binding site [chemical binding]; other site 983917014028 Q-loop/lid; other site 983917014029 ABC transporter signature motif; other site 983917014030 Walker B; other site 983917014031 D-loop; other site 983917014032 H-loop/switch region; other site 983917014033 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 983917014034 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 983917014035 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917014036 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 983917014037 TM-ABC transporter signature motif; other site 983917014038 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 983917014039 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 983917014040 TM-ABC transporter signature motif; other site 983917014041 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 983917014042 active site 983917014043 catalytic motif [active] 983917014044 Zn binding site [ion binding]; other site 983917014045 purine nucleoside phosphorylase; Provisional; Region: PRK08202 983917014046 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 983917014047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 983917014048 substrate binding pocket [chemical binding]; other site 983917014049 membrane-bound complex binding site; other site 983917014050 hinge residues; other site 983917014051 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 983917014052 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 983917014053 non-specific DNA binding site [nucleotide binding]; other site 983917014054 salt bridge; other site 983917014055 sequence-specific DNA binding site [nucleotide binding]; other site 983917014056 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 983917014057 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 983917014058 Transposase; Region: DEDD_Tnp_IS110; pfam01548 983917014059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 983917014060 Restriction endonuclease; Region: Mrr_cat; pfam04471 983917014061 Restriction endonuclease; Region: Mrr_cat; pfam04471 983917014062 transposase IS116/IS110/IS902 family protein 983917014063 transposase IS116/IS110/IS902 family protein 983917014064 Transposase; Region: DEDD_Tnp_IS110; pfam01548 983917014065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 983917014066 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 983917014067 Class I aldolases; Region: Aldolase_Class_I; cl17187 983917014068 catalytic residue [active] 983917014069 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 983917014070 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 983917014071 putative active site [active] 983917014072 putative metal binding site [ion binding]; other site 983917014073 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 983917014074 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 983917014075 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 983917014076 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 983917014077 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 983917014078 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 983917014079 active site 983917014080 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917014081 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 983917014082 TM-ABC transporter signature motif; other site 983917014083 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 983917014084 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 983917014085 TM-ABC transporter signature motif; other site 983917014086 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 983917014087 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 983917014088 Walker A/P-loop; other site 983917014089 ATP binding site [chemical binding]; other site 983917014090 Q-loop/lid; other site 983917014091 ABC transporter signature motif; other site 983917014092 Walker B; other site 983917014093 D-loop; other site 983917014094 H-loop/switch region; other site 983917014095 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 983917014096 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 983917014097 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 983917014098 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 983917014099 putative ligand binding site [chemical binding]; other site 983917014100 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 983917014101 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 983917014102 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 983917014103 FeS/SAM binding site; other site 983917014104 V4R domain; Region: V4R; cl15268 983917014105 adenylosuccinate lyase; Provisional; Region: PRK09285 983917014106 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 983917014107 tetramer interface [polypeptide binding]; other site 983917014108 active site 983917014109 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 983917014110 active site 983917014111 dimer interface [polypeptide binding]; other site 983917014112 PAS domain; Region: PAS_9; pfam13426 983917014113 PAS domain; Region: PAS_8; pfam13188 983917014114 PAS domain S-box; Region: sensory_box; TIGR00229 983917014115 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917014116 putative active site [active] 983917014117 heme pocket [chemical binding]; other site 983917014118 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917014119 PAS domain; Region: PAS_9; pfam13426 983917014120 putative active site [active] 983917014121 heme pocket [chemical binding]; other site 983917014122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917014123 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917014124 dimer interface [polypeptide binding]; other site 983917014125 phosphorylation site [posttranslational modification] 983917014126 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917014127 ATP binding site [chemical binding]; other site 983917014128 Mg2+ binding site [ion binding]; other site 983917014129 G-X-G motif; other site 983917014130 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983917014131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917014132 active site 983917014133 phosphorylation site [posttranslational modification] 983917014134 intermolecular recognition site; other site 983917014135 dimerization interface [polypeptide binding]; other site 983917014136 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_8; cd06905 983917014137 putative active site [active] 983917014138 Zn binding site [ion binding]; other site 983917014139 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 983917014140 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 983917014141 putative active site [active] 983917014142 putative dimer interface [polypeptide binding]; other site 983917014143 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 983917014144 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 983917014145 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 983917014146 malate synthase G; Provisional; Region: PRK02999 983917014147 active site 983917014148 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 983917014149 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 983917014150 motif II; other site 983917014151 LysR family transcriptional regulator; Provisional; Region: PRK14997 983917014152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917014153 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 983917014154 putative effector binding pocket; other site 983917014155 dimerization interface [polypeptide binding]; other site 983917014156 hypothetical protein; Provisional; Region: PRK11505 983917014157 psiF repeat; Region: PsiF_repeat; pfam07769 983917014158 psiF repeat; Region: PsiF_repeat; pfam07769 983917014159 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 983917014160 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 983917014161 DNA binding residues [nucleotide binding] 983917014162 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 983917014163 Catalytic domain of Protein Kinases; Region: PKc; cd00180 983917014164 active site 983917014165 ATP binding site [chemical binding]; other site 983917014166 substrate binding site [chemical binding]; other site 983917014167 activation loop (A-loop); other site 983917014168 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983917014169 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 983917014170 ligand binding site [chemical binding]; other site 983917014171 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 983917014172 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 983917014173 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 983917014174 active site 983917014175 HIGH motif; other site 983917014176 KMSK motif region; other site 983917014177 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 983917014178 tRNA binding surface [nucleotide binding]; other site 983917014179 anticodon binding site; other site 983917014180 Sporulation related domain; Region: SPOR; pfam05036 983917014181 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 983917014182 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 983917014183 catalytic residues [active] 983917014184 hinge region; other site 983917014185 alpha helical domain; other site 983917014186 OstA-like protein; Region: OstA; pfam03968 983917014187 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 983917014188 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 983917014189 Walker A/P-loop; other site 983917014190 ATP binding site [chemical binding]; other site 983917014191 Q-loop/lid; other site 983917014192 ABC transporter signature motif; other site 983917014193 Walker B; other site 983917014194 D-loop; other site 983917014195 H-loop/switch region; other site 983917014196 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 983917014197 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 983917014198 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 983917014199 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 983917014200 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 983917014201 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 983917014202 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 983917014203 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 983917014204 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 983917014205 catalytic residues [active] 983917014206 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 983917014207 Amidase; Region: Amidase; cl11426 983917014208 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 983917014209 RNA methyltransferase, RsmE family; Region: TIGR00046 983917014210 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 983917014211 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 983917014212 acyl-activating enzyme (AAE) consensus motif; other site 983917014213 putative AMP binding site [chemical binding]; other site 983917014214 putative active site [active] 983917014215 putative CoA binding site [chemical binding]; other site 983917014216 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 983917014217 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 983917014218 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 983917014219 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 983917014220 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 983917014221 ligand binding site [chemical binding]; other site 983917014222 homodimer interface [polypeptide binding]; other site 983917014223 NAD(P) binding site [chemical binding]; other site 983917014224 trimer interface B [polypeptide binding]; other site 983917014225 trimer interface A [polypeptide binding]; other site 983917014226 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, 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_2; cd03675 983917014227 nudix motif; other site 983917014228 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917014229 PAS domain; Region: PAS_9; pfam13426 983917014230 putative active site [active] 983917014231 heme pocket [chemical binding]; other site 983917014232 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 983917014233 dimer interface [polypeptide binding]; other site 983917014234 putative CheW interface [polypeptide binding]; other site 983917014235 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 983917014236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 983917014237 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 983917014238 substrate binding site [chemical binding]; other site 983917014239 dimerization interface [polypeptide binding]; other site 983917014240 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 983917014241 DNA-binding site [nucleotide binding]; DNA binding site 983917014242 RNA-binding motif; other site 983917014243 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 983917014244 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 983917014245 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 983917014246 Walker A/P-loop; other site 983917014247 ATP binding site [chemical binding]; other site 983917014248 Q-loop/lid; other site 983917014249 ABC transporter signature motif; other site 983917014250 Walker B; other site 983917014251 D-loop; other site 983917014252 H-loop/switch region; other site 983917014253 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 983917014254 dimer interface [polypeptide binding]; other site 983917014255 conserved gate region; other site 983917014256 putative PBP binding loops; other site 983917014257 ABC-ATPase subunit interface; other site 983917014258 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 983917014259 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 983917014260 dimer interface [polypeptide binding]; other site 983917014261 conserved gate region; other site 983917014262 putative PBP binding loops; other site 983917014263 ABC-ATPase subunit interface; other site 983917014264 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 983917014265 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 983917014266 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 983917014267 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 983917014268 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 983917014269 catalytic core [active] 983917014270 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 983917014271 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 983917014272 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 983917014273 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 983917014274 active site 983917014275 Zn binding site [ion binding]; other site 983917014276 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 983917014277 gating phenylalanine in ion channel; other site 983917014278 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 983917014279 putative homodimer interface [polypeptide binding]; other site 983917014280 putative homotetramer interface [polypeptide binding]; other site 983917014281 putative allosteric switch controlling residues; other site 983917014282 putative metal binding site [ion binding]; other site 983917014283 putative homodimer-homodimer interface [polypeptide binding]; other site 983917014284 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 983917014285 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983917014286 Protein export membrane protein; Region: SecD_SecF; cl14618 983917014287 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917014288 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917014289 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 983917014290 nudix motif; other site 983917014291 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 983917014292 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 983917014293 dimer interface [polypeptide binding]; other site 983917014294 ssDNA binding site [nucleotide binding]; other site 983917014295 tetramer (dimer of dimers) interface [polypeptide binding]; other site 983917014296 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 983917014297 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 983917014298 ATP binding site [chemical binding]; other site 983917014299 putative Mg++ binding site [ion binding]; other site 983917014300 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 983917014301 nucleotide binding region [chemical binding]; other site 983917014302 ATP-binding site [chemical binding]; other site 983917014303 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 983917014304 HRDC domain; Region: HRDC; pfam00570 983917014305 CheB methylesterase; Region: CheB_methylest; pfam01339 983917014306 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 983917014307 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 983917014308 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 983917014309 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 983917014310 PAS domain; Region: PAS_10; pfam13596 983917014311 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 983917014312 putative active site [active] 983917014313 heme pocket [chemical binding]; other site 983917014314 PAS fold; Region: PAS_4; pfam08448 983917014315 PAS domain; Region: PAS_9; pfam13426 983917014316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917014317 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917014318 dimer interface [polypeptide binding]; other site 983917014319 phosphorylation site [posttranslational modification] 983917014320 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917014321 ATP binding site [chemical binding]; other site 983917014322 Mg2+ binding site [ion binding]; other site 983917014323 G-X-G motif; other site 983917014324 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 983917014325 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 983917014326 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 983917014327 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 983917014328 SWIB/MDM2 domain; Region: SWIB; pfam02201 983917014329 Membrane protein of unknown function; Region: DUF360; pfam04020 983917014330 Peptidase family M48; Region: Peptidase_M48; pfam01435 983917014331 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 983917014332 trimer interface [polypeptide binding]; other site 983917014333 dimer interface [polypeptide binding]; other site 983917014334 putative active site [active] 983917014335 O-Antigen ligase; Region: Wzy_C; pfam04932 983917014336 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 983917014337 O-Antigen ligase; Region: Wzy_C; pfam04932 983917014338 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 983917014339 Pilin (bacterial filament); Region: Pilin; pfam00114 983917014340 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983917014341 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 983917014342 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 983917014343 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 983917014344 phosphopeptide binding site; other site 983917014345 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 983917014346 active site 983917014347 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 983917014348 Catalytic domain of Protein Kinases; Region: PKc; cd00180 983917014349 active site 983917014350 ATP binding site [chemical binding]; other site 983917014351 substrate binding site [chemical binding]; other site 983917014352 activation loop (A-loop); other site 983917014353 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 983917014354 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 983917014355 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 983917014356 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 983917014357 CoA binding domain; Region: CoA_binding; smart00881 983917014358 CoA-ligase; Region: Ligase_CoA; pfam00549 983917014359 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 983917014360 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 983917014361 CoA-ligase; Region: Ligase_CoA; pfam00549 983917014362 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 983917014363 recombination regulator RecX; Reviewed; Region: recX; PRK00117 983917014364 recombinase A; Provisional; Region: recA; PRK09354 983917014365 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 983917014366 hexamer interface [polypeptide binding]; other site 983917014367 Walker A motif; other site 983917014368 ATP binding site [chemical binding]; other site 983917014369 Walker B motif; other site 983917014370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983917014371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 983917014372 active site 983917014373 phosphorylation site [posttranslational modification] 983917014374 intermolecular recognition site; other site 983917014375 dimerization interface [polypeptide binding]; other site 983917014376 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 983917014377 DNA binding site [nucleotide binding] 983917014378 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 983917014379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983917014380 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 983917014381 dimer interface [polypeptide binding]; other site 983917014382 phosphorylation site [posttranslational modification] 983917014383 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 983917014384 ATP binding site [chemical binding]; other site 983917014385 Mg2+ binding site [ion binding]; other site 983917014386 G-X-G motif; other site 983917014387 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 983917014388 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 983917014389 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 983917014390 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 983917014391 rod shape-determining protein MreD; Region: MreD; cl01087 983917014392 rod shape-determining protein MreC; Provisional; Region: PRK13922 983917014393 rod shape-determining protein MreC; Region: MreC; pfam04085 983917014394 rod shape-determining protein MreB; Provisional; Region: PRK13927 983917014395 MreB and similar proteins; Region: MreB_like; cd10225 983917014396 nucleotide binding site [chemical binding]; other site 983917014397 Mg binding site [ion binding]; other site 983917014398 putative protofilament interaction site [polypeptide binding]; other site 983917014399 RodZ interaction site [polypeptide binding]; other site 983917014400 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 983917014401 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 983917014402 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 983917014403 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 983917014404 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 983917014405 GatB domain; Region: GatB_Yqey; smart00845 983917014406 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 983917014407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917014408 active site 983917014409 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 983917014410 putative active site [active] 983917014411 putative catalytic site [active] 983917014412 putative DNA binding site [nucleotide binding]; other site 983917014413 putative phosphate binding site [ion binding]; other site 983917014414 metal binding site A [ion binding]; metal-binding site 983917014415 putative AP binding site [nucleotide binding]; other site 983917014416 putative metal binding site B [ion binding]; other site 983917014417 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 983917014418 DNA binding residues [nucleotide binding] 983917014419 dimerization interface [polypeptide binding]; other site 983917014420 Peptidase family M48; Region: Peptidase_M48; pfam01435 983917014421 muropeptide transporter; Validated; Region: ampG; cl17669 983917014422 muropeptide transporter; Validated; Region: ampG; cl17669 983917014423 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 983917014424 catalytic residues [active] 983917014425 hypothetical protein; Provisional; Region: PRK14852 983917014426 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_18; cd08505 983917014427 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 983917014428 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_18; cd08505 983917014429 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 983917014430 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 983917014431 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 983917014432 dimer interface [polypeptide binding]; other site 983917014433 conserved gate region; other site 983917014434 putative PBP binding loops; other site 983917014435 ABC-ATPase subunit interface; other site 983917014436 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 983917014437 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 983917014438 dimer interface [polypeptide binding]; other site 983917014439 conserved gate region; other site 983917014440 putative PBP binding loops; other site 983917014441 ABC-ATPase subunit interface; other site 983917014442 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 983917014443 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917014444 Walker A/P-loop; other site 983917014445 ATP binding site [chemical binding]; other site 983917014446 Q-loop/lid; other site 983917014447 ABC transporter signature motif; other site 983917014448 Walker B; other site 983917014449 D-loop; other site 983917014450 H-loop/switch region; other site 983917014451 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917014452 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 983917014453 Walker A/P-loop; other site 983917014454 ATP binding site [chemical binding]; other site 983917014455 Q-loop/lid; other site 983917014456 ABC transporter signature motif; other site 983917014457 Walker B; other site 983917014458 D-loop; other site 983917014459 H-loop/switch region; other site 983917014460 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983917014461 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 983917014462 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 983917014463 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 983917014464 Ligand Binding Site [chemical binding]; other site 983917014465 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983917014466 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 983917014467 HlyD family secretion protein; Region: HlyD_3; pfam13437 983917014468 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983917014469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 983917014470 Walker A/P-loop; other site 983917014471 ATP binding site [chemical binding]; other site 983917014472 Q-loop/lid; other site 983917014473 ABC transporter signature motif; other site 983917014474 Walker B; other site 983917014475 D-loop; other site 983917014476 H-loop/switch region; other site 983917014477 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917014478 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 983917014479 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983917014480 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 983917014481 FtsX-like permease family; Region: FtsX; pfam02687 983917014482 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 983917014483 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 983917014484 acyl-activating enzyme (AAE) consensus motif; other site 983917014485 putative AMP binding site [chemical binding]; other site 983917014486 putative active site [active] 983917014487 putative CoA binding site [chemical binding]; other site 983917014488 HDOD domain; Region: HDOD; pfam08668 983917014489 choline dehydrogenase; Validated; Region: PRK02106 983917014490 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 983917014491 MarC family integral membrane protein; Region: MarC; cl00919 983917014492 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 983917014493 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 983917014494 short chain dehydrogenase; Provisional; Region: PRK07024 983917014495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983917014496 NAD(P) binding site [chemical binding]; other site 983917014497 active site 983917014498 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 983917014499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 983917014500 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 983917014501 active site 983917014502 motif I; other site 983917014503 phosphoglycolate phosphatase; Provisional; Region: PRK01158 983917014504 motif II; other site 983917014505 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 983917014506 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 983917014507 putative active site [active] 983917014508 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 983917014509 putative cation:proton antiport protein; Provisional; Region: PRK10669 983917014510 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 983917014511 TrkA-N domain; Region: TrkA_N; pfam02254 983917014512 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 983917014513 active site 983917014514 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 983917014515 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 983917014516 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 983917014517 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 983917014518 trmE is a tRNA modification GTPase; Region: trmE; cd04164 983917014519 G1 box; other site 983917014520 GTP/Mg2+ binding site [chemical binding]; other site 983917014521 Switch I region; other site 983917014522 G2 box; other site 983917014523 Switch II region; other site 983917014524 G3 box; other site 983917014525 G4 box; other site 983917014526 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 983917014527 membrane protein insertase; Provisional; Region: PRK01318 983917014528 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 983917014529 Haemolytic domain; Region: Haemolytic; cl00506 983917014530 Ribonuclease P; Region: Ribonuclease_P; pfam00825 983917014531 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399