-- dump date 20140620_061905 -- class Genbank::misc_feature -- table misc_feature_note -- id note 984262000001 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 984262000002 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 984262000003 active site 984262000004 FMN binding site [chemical binding]; other site 984262000005 substrate binding site [chemical binding]; other site 984262000006 catalytic residues [active] 984262000007 homodimer interface [polypeptide binding]; other site 984262000008 GMP synthase; Reviewed; Region: guaA; PRK00074 984262000009 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 984262000010 AMP/PPi binding site [chemical binding]; other site 984262000011 candidate oxyanion hole; other site 984262000012 catalytic triad [active] 984262000013 potential glutamine specificity residues [chemical binding]; other site 984262000014 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 984262000015 ATP Binding subdomain [chemical binding]; other site 984262000016 Ligand Binding sites [chemical binding]; other site 984262000017 Dimerization subdomain; other site 984262000018 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 984262000019 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 984262000020 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 984262000021 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 984262000022 active site 984262000023 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 984262000024 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 984262000025 dimerization interface [polypeptide binding]; other site 984262000026 ATP binding site [chemical binding]; other site 984262000027 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 984262000028 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 984262000029 dimerization interface [polypeptide binding]; other site 984262000030 ATP binding site [chemical binding]; other site 984262000031 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 984262000032 dimerization interface [polypeptide binding]; other site 984262000033 ATP binding site [chemical binding]; other site 984262000034 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 984262000035 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 984262000036 conserved cys residue [active] 984262000037 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 984262000038 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 984262000039 purine monophosphate binding site [chemical binding]; other site 984262000040 dimer interface [polypeptide binding]; other site 984262000041 putative catalytic residues [active] 984262000042 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 984262000043 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 984262000044 ATP binding site [chemical binding]; other site 984262000045 active site 984262000046 substrate binding site [chemical binding]; other site 984262000047 adenylosuccinate lyase; Provisional; Region: PRK09285 984262000048 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 984262000049 tetramer interface [polypeptide binding]; other site 984262000050 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 984262000051 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 984262000052 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 984262000053 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 984262000054 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 984262000055 active site 984262000056 cosubstrate binding site; other site 984262000057 substrate binding site [chemical binding]; other site 984262000058 catalytic site [active] 984262000059 amidophosphoribosyltransferase; Provisional; Region: PRK09246 984262000060 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 984262000061 active site 984262000062 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984262000063 active site 984262000064 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 984262000065 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262000066 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262000067 ligand binding site [chemical binding]; other site 984262000068 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 984262000069 ParA-like protein; Provisional; Region: PHA02518 984262000070 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 984262000071 Initiator Replication protein; Region: Rep_3; pfam01051 984262000072 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000073 Walker A motif; other site 984262000074 ATP binding site [chemical binding]; other site 984262000075 Walker B motif; other site 984262000076 HTH domain; Region: HTH_22; pfam13309 984262000077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262000078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262000079 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 984262000080 tetramer interface [polypeptide binding]; other site 984262000081 TPP-binding site [chemical binding]; other site 984262000082 heterodimer interface [polypeptide binding]; other site 984262000083 phosphorylation loop region [posttranslational modification] 984262000084 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 984262000085 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 984262000086 alpha subunit interface [polypeptide binding]; other site 984262000087 TPP binding site [chemical binding]; other site 984262000088 heterodimer interface [polypeptide binding]; other site 984262000089 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984262000090 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 984262000091 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 984262000092 FAD binding pocket [chemical binding]; other site 984262000093 FAD binding motif [chemical binding]; other site 984262000094 phosphate binding motif [ion binding]; other site 984262000095 beta-alpha-beta structure motif; other site 984262000096 NAD(p) ribose binding residues [chemical binding]; other site 984262000097 NAD binding pocket [chemical binding]; other site 984262000098 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 984262000099 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 984262000100 catalytic loop [active] 984262000101 iron binding site [ion binding]; other site 984262000102 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 984262000103 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 984262000104 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 984262000105 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 984262000106 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 984262000107 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 984262000108 enoyl-CoA hydratase; Provisional; Region: PRK08140 984262000109 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 984262000110 substrate binding site [chemical binding]; other site 984262000111 oxyanion hole (OAH) forming residues; other site 984262000112 trimer interface [polypeptide binding]; other site 984262000113 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 984262000114 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 984262000115 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 984262000116 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984262000117 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984262000118 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 984262000119 CoenzymeA binding site [chemical binding]; other site 984262000120 subunit interaction site [polypeptide binding]; other site 984262000121 PHB binding site; other site 984262000122 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 984262000123 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 984262000124 dimer interface [polypeptide binding]; other site 984262000125 active site 984262000126 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 984262000127 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 984262000128 substrate binding site [chemical binding]; other site 984262000129 dimer interface [polypeptide binding]; other site 984262000130 NADP binding site [chemical binding]; other site 984262000131 catalytic residues [active] 984262000132 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 984262000133 active site 2 [active] 984262000134 active site 1 [active] 984262000135 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 984262000136 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 984262000137 substrate binding site [chemical binding]; other site 984262000138 oxyanion hole (OAH) forming residues; other site 984262000139 trimer interface [polypeptide binding]; other site 984262000140 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 984262000141 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 984262000142 putative trimer interface [polypeptide binding]; other site 984262000143 putative CoA binding site [chemical binding]; other site 984262000144 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 984262000145 non-specific DNA binding site [nucleotide binding]; other site 984262000146 salt bridge; other site 984262000147 sequence-specific DNA binding site [nucleotide binding]; other site 984262000148 MarC family integral membrane protein; Region: MarC; pfam01914 984262000149 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 984262000150 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 984262000151 putative DNA binding site [nucleotide binding]; other site 984262000152 putative Zn2+ binding site [ion binding]; other site 984262000153 AsnC family; Region: AsnC_trans_reg; pfam01037 984262000154 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262000155 multiple promoter invertase; Provisional; Region: mpi; PRK13413 984262000156 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 984262000157 catalytic residues [active] 984262000158 catalytic nucleophile [active] 984262000159 Presynaptic Site I dimer interface [polypeptide binding]; other site 984262000160 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 984262000161 Synaptic Flat tetramer interface [polypeptide binding]; other site 984262000162 Synaptic Site I dimer interface [polypeptide binding]; other site 984262000163 DNA binding site [nucleotide binding] 984262000164 KilA-N domain; Region: KilA-N; pfam04383 984262000165 KilA-N domain; Region: KilA-N; pfam04383 984262000166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984262000167 active site 984262000168 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 984262000169 active site 984262000170 dimer interface [polypeptide binding]; other site 984262000171 DnaA N-terminal domain; Region: DnaA_N; pfam11638 984262000172 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 984262000173 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000174 Walker A motif; other site 984262000175 ATP binding site [chemical binding]; other site 984262000176 Walker B motif; other site 984262000177 arginine finger; other site 984262000178 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 984262000179 DnaA box-binding interface [nucleotide binding]; other site 984262000180 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 984262000181 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 984262000182 dimer interface [polypeptide binding]; other site 984262000183 active site 984262000184 glycine-pyridoxal phosphate binding site [chemical binding]; other site 984262000185 folate binding site [chemical binding]; other site 984262000186 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984262000187 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 984262000188 competence damage-inducible protein A; Provisional; Region: PRK00549 984262000189 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 984262000190 putative MPT binding site; other site 984262000191 Competence-damaged protein; Region: CinA; pfam02464 984262000192 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 984262000193 ligand binding site [chemical binding]; other site 984262000194 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 984262000195 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 984262000196 dimer interface [polypeptide binding]; other site 984262000197 conserved gate region; other site 984262000198 putative PBP binding loops; other site 984262000199 ABC-ATPase subunit interface; other site 984262000200 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 984262000201 Ca2+ binding site [ion binding]; other site 984262000202 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 984262000203 Ca2+ binding site [ion binding]; other site 984262000204 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984262000205 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984262000206 active site 984262000207 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 984262000208 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 984262000209 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 984262000210 NHAD transporter family protein; Provisional; Region: PLN00137 984262000211 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 984262000212 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 984262000213 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 984262000214 putative active site; other site 984262000215 catalytic residue [active] 984262000216 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 984262000217 TrkA-N domain; Region: TrkA_N; pfam02254 984262000218 TrkA-C domain; Region: TrkA_C; pfam02080 984262000219 TrkA-N domain; Region: TrkA_N; pfam02254 984262000220 TrkA-C domain; Region: TrkA_C; pfam02080 984262000221 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 984262000222 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 984262000223 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 984262000224 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 984262000225 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262000226 glutamate formiminotransferase; Region: FtcD; TIGR02024 984262000227 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 984262000228 Formiminotransferase domain; Region: FTCD; pfam02971 984262000229 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 984262000230 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 984262000231 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 984262000232 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 984262000233 Walker A/P-loop; other site 984262000234 ATP binding site [chemical binding]; other site 984262000235 Q-loop/lid; other site 984262000236 ABC transporter signature motif; other site 984262000237 Walker B; other site 984262000238 D-loop; other site 984262000239 H-loop/switch region; other site 984262000240 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 984262000241 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 984262000242 propionate catabolism operon regulatory protein PrpR; Region: propionate_PrpR; TIGR02329 984262000243 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000244 Walker A motif; other site 984262000245 ATP binding site [chemical binding]; other site 984262000246 Walker B motif; other site 984262000247 arginine finger; other site 984262000248 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 984262000249 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 984262000250 active site 984262000251 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 984262000252 Beta-lactamase; Region: Beta-lactamase; pfam00144 984262000253 glycerol kinase; Provisional; Region: glpK; PRK00047 984262000254 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 984262000255 N- and C-terminal domain interface [polypeptide binding]; other site 984262000256 active site 984262000257 MgATP binding site [chemical binding]; other site 984262000258 catalytic site [active] 984262000259 metal binding site [ion binding]; metal-binding site 984262000260 glycerol binding site [chemical binding]; other site 984262000261 homotetramer interface [polypeptide binding]; other site 984262000262 homodimer interface [polypeptide binding]; other site 984262000263 FBP binding site [chemical binding]; other site 984262000264 protein IIAGlc interface [polypeptide binding]; other site 984262000265 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 984262000266 TPR motif; other site 984262000267 binding surface 984262000268 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 984262000269 binding surface 984262000270 TPR motif; other site 984262000271 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 984262000272 binding surface 984262000273 TPR motif; other site 984262000274 TPR repeat; Region: TPR_11; pfam13414 984262000275 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 984262000276 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262000277 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262000278 ligand binding site [chemical binding]; other site 984262000279 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262000280 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262000281 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 984262000282 Found in ATP-dependent protease La (LON); Region: LON; smart00464 984262000283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000284 Walker A motif; other site 984262000285 ATP binding site [chemical binding]; other site 984262000286 Walker B motif; other site 984262000287 arginine finger; other site 984262000288 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 984262000289 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 984262000290 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 984262000291 FMN binding site [chemical binding]; other site 984262000292 active site 984262000293 catalytic residues [active] 984262000294 substrate binding site [chemical binding]; other site 984262000295 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 984262000296 putative acyl-acceptor binding pocket; other site 984262000297 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 984262000298 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 984262000299 active site 984262000300 catalytic site [active] 984262000301 substrate binding site [chemical binding]; other site 984262000302 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 984262000303 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 984262000304 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 984262000305 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000306 Lamin Tail Domain; Region: LTD; pfam00932 984262000307 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 984262000308 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 984262000309 putative trimer interface [polypeptide binding]; other site 984262000310 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 984262000311 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 984262000312 putative CoA binding site [chemical binding]; other site 984262000313 putative trimer interface [polypeptide binding]; other site 984262000314 putative active site [active] 984262000315 putative substrate binding site [chemical binding]; other site 984262000316 putative CoA binding site [chemical binding]; other site 984262000317 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 984262000318 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 984262000319 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984262000320 catalytic residue [active] 984262000321 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262000322 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262000323 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 984262000324 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 984262000325 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 984262000326 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 984262000327 Methyltransferase domain; Region: Methyltransf_24; pfam13578 984262000328 thymidylate synthase; Reviewed; Region: thyA; PRK01827 984262000329 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 984262000330 dimerization interface [polypeptide binding]; other site 984262000331 active site 984262000332 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 984262000333 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 984262000334 active site 984262000335 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 984262000336 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 984262000337 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 984262000338 ligand binding site [chemical binding]; other site 984262000339 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 984262000340 Lumazine binding domain; Region: Lum_binding; pfam00677 984262000341 Lumazine binding domain; Region: Lum_binding; pfam00677 984262000342 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 984262000343 active site 984262000344 oligomerization interface [polypeptide binding]; other site 984262000345 metal binding site [ion binding]; metal-binding site 984262000346 YceG-like family; Region: YceG; pfam02618 984262000347 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 984262000348 dimerization interface [polypeptide binding]; other site 984262000349 GAF domain; Region: GAF; pfam01590 984262000350 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 984262000351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262000352 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 984262000353 dimer interface [polypeptide binding]; other site 984262000354 phosphorylation site [posttranslational modification] 984262000355 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262000356 ATP binding site [chemical binding]; other site 984262000357 Mg2+ binding site [ion binding]; other site 984262000358 G-X-G motif; other site 984262000359 Integrase core domain; Region: rve; pfam00665 984262000360 Integrase core domain; Region: rve_3; pfam13683 984262000361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262000362 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984262000363 acetyl-CoA C-acetyltransferase; Region: PLN02644 984262000364 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 984262000365 dimer interface [polypeptide binding]; other site 984262000366 active site 984262000367 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 984262000368 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 984262000369 Substrate binding site; other site 984262000370 metal-binding site 984262000371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984262000372 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984262000373 transcriptional activator RhaR; Provisional; Region: PRK13502 984262000374 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000375 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262000376 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 984262000377 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 984262000378 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 984262000379 ring oligomerisation interface [polypeptide binding]; other site 984262000380 ATP/Mg binding site [chemical binding]; other site 984262000381 stacking interactions; other site 984262000382 hinge regions; other site 984262000383 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 984262000384 oligomerisation interface [polypeptide binding]; other site 984262000385 mobile loop; other site 984262000386 roof hairpin; other site 984262000387 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262000388 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262000389 Leucine-rich repeats; other site 984262000390 Substrate binding site [chemical binding]; other site 984262000391 Leucine rich repeat; Region: LRR_8; pfam13855 984262000392 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 984262000393 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984262000394 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 984262000395 FtsX-like permease family; Region: FtsX; pfam02687 984262000396 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 984262000397 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262000398 substrate binding site [chemical binding]; other site 984262000399 activation loop (A-loop); other site 984262000400 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 984262000401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984262000402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984262000403 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 984262000404 dimerization interface [polypeptide binding]; other site 984262000405 TIGR02594 family protein; Region: TIGR02594 984262000406 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 984262000407 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 984262000408 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 984262000409 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 984262000410 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 984262000411 CTP synthetase; Validated; Region: pyrG; PRK05380 984262000412 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 984262000413 Catalytic site [active] 984262000414 active site 984262000415 UTP binding site [chemical binding]; other site 984262000416 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 984262000417 active site 984262000418 putative oxyanion hole; other site 984262000419 catalytic triad [active] 984262000420 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 984262000421 Uncharacterized conserved protein [Function unknown]; Region: COG1479 984262000422 Protein of unknown function DUF262; Region: DUF262; pfam03235 984262000423 Protein of unknown function DUF262; Region: DUF262; pfam03235 984262000424 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 984262000425 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 984262000426 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 984262000427 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262000428 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262000429 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 984262000430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262000431 active site 984262000432 phosphorylation site [posttranslational modification] 984262000433 intermolecular recognition site; other site 984262000434 dimerization interface [polypeptide binding]; other site 984262000435 LytTr DNA-binding domain; Region: LytTR; smart00850 984262000436 Histidine kinase; Region: His_kinase; pfam06580 984262000437 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000438 PIF1-like helicase; Region: PIF1; pfam05970 984262000439 Walker A motif; other site 984262000440 ATP binding site [chemical binding]; other site 984262000441 Walker B motif; other site 984262000442 Family description; Region: UvrD_C_2; pfam13538 984262000443 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262000444 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262000445 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 984262000446 FOG: PKD repeat [General function prediction only]; Region: COG3291 984262000447 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 984262000448 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262000449 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262000450 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 984262000451 DNA-binding interface [nucleotide binding]; DNA binding site 984262000452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262000453 Integrase core domain; Region: rve; pfam00665 984262000454 Integrase core domain; Region: rve_3; pfam13683 984262000455 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 984262000456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000457 Walker A/P-loop; other site 984262000458 ATP binding site [chemical binding]; other site 984262000459 Q-loop/lid; other site 984262000460 ABC transporter signature motif; other site 984262000461 Walker B; other site 984262000462 D-loop; other site 984262000463 H-loop/switch region; other site 984262000464 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 984262000465 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262000466 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 984262000467 DNA binding residues [nucleotide binding] 984262000468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 984262000469 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 984262000470 ScpA/B protein; Region: ScpA_ScpB; cl00598 984262000471 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; cd00475 984262000472 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 984262000473 catalytic residue [active] 984262000474 putative FPP diphosphate binding site; other site 984262000475 putative FPP binding hydrophobic cleft; other site 984262000476 dimer interface [polypeptide binding]; other site 984262000477 putative IPP diphosphate binding site; other site 984262000478 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 984262000479 RimM N-terminal domain; Region: RimM; pfam01782 984262000480 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 984262000481 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000482 Walker A/P-loop; other site 984262000483 ATP binding site [chemical binding]; other site 984262000484 AAA domain; Region: AAA_21; pfam13304 984262000485 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 984262000486 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 984262000487 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 984262000488 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 984262000489 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 984262000490 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 984262000491 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 984262000492 Chloramphenicol acetyltransferase; Region: CAT; cl02008 984262000493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000494 Walker A/P-loop; other site 984262000495 ATP binding site [chemical binding]; other site 984262000496 ABC transporter; Region: ABC_tran; pfam00005 984262000497 Q-loop/lid; other site 984262000498 ABC transporter signature motif; other site 984262000499 Walker B; other site 984262000500 D-loop; other site 984262000501 H-loop/switch region; other site 984262000502 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 984262000503 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262000504 catalytic residues [active] 984262000505 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 984262000506 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 984262000507 Cl binding site [ion binding]; other site 984262000508 oligomer interface [polypeptide binding]; other site 984262000509 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262000510 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 984262000511 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 984262000512 Peptidase family M48; Region: Peptidase_M48; cl12018 984262000513 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 984262000514 Leucine rich repeat; Region: LRR_8; pfam13855 984262000515 Leucine rich repeat; Region: LRR_8; pfam13855 984262000516 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 984262000517 proline aminopeptidase P II; Provisional; Region: PRK10879 984262000518 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 984262000519 active site 984262000520 AAA domain; Region: AAA_21; pfam13304 984262000521 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262000522 dimer interface [polypeptide binding]; other site 984262000523 phosphorylation site [posttranslational modification] 984262000524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262000525 ATP binding site [chemical binding]; other site 984262000526 Mg2+ binding site [ion binding]; other site 984262000527 G-X-G motif; other site 984262000528 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984262000529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262000530 active site 984262000531 phosphorylation site [posttranslational modification] 984262000532 intermolecular recognition site; other site 984262000533 dimerization interface [polypeptide binding]; other site 984262000534 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 984262000535 DNA binding site [nucleotide binding] 984262000536 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 984262000537 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 984262000538 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 984262000539 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 984262000540 active site 984262000541 motif I; other site 984262000542 motif II; other site 984262000543 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 984262000544 NUMOD4 motif; Region: NUMOD4; pfam07463 984262000545 Protein of unknown function, DUF399; Region: DUF399; cl01139 984262000546 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 984262000547 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 984262000548 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 984262000549 FeS/SAM binding site; other site 984262000550 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 984262000551 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 984262000552 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 984262000553 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 984262000554 Cation efflux family; Region: Cation_efflux; cl00316 984262000555 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 984262000556 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 984262000557 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 984262000558 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 984262000559 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 984262000560 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_4; cd03407 984262000561 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 984262000562 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 984262000563 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 984262000564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984262000565 CcmB protein; Region: CcmB; cl17444 984262000566 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262000567 substrate binding site [chemical binding]; other site 984262000568 activation loop (A-loop); other site 984262000569 Acyltransferase family; Region: Acyl_transf_3; pfam01757 984262000570 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984262000571 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 984262000572 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984262000573 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984262000574 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 984262000575 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 984262000576 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 984262000577 ATP binding site [chemical binding]; other site 984262000578 putative Mg++ binding site [ion binding]; other site 984262000579 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262000580 active site 984262000581 ATP binding site [chemical binding]; other site 984262000582 substrate binding site [chemical binding]; other site 984262000583 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262000584 substrate binding site [chemical binding]; other site 984262000585 activation loop (A-loop); other site 984262000586 activation loop (A-loop); other site 984262000587 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 984262000588 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 984262000589 Uncharacterized conserved protein [Function unknown]; Region: COG1359 984262000590 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 984262000591 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 984262000592 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000593 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000594 Predicted transcriptional regulators [Transcription]; Region: COG1733 984262000595 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 984262000596 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 984262000597 dimer interface [polypeptide binding]; other site 984262000598 FMN binding site [chemical binding]; other site 984262000599 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 984262000600 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 984262000601 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 984262000602 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 984262000603 Active_site [active] 984262000604 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984262000605 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984262000606 Walker A/P-loop; other site 984262000607 ATP binding site [chemical binding]; other site 984262000608 Q-loop/lid; other site 984262000609 ABC transporter signature motif; other site 984262000610 Walker B; other site 984262000611 D-loop; other site 984262000612 H-loop/switch region; other site 984262000613 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 984262000614 active site 984262000615 catalytic triad [active] 984262000616 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262000617 DHHW protein; Region: DHHW; pfam14286 984262000618 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 984262000619 adenylate kinase; Provisional; Region: PRK14531 984262000620 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 984262000621 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 984262000622 putative active site [active] 984262000623 putative metal binding site [ion binding]; other site 984262000624 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 984262000625 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 984262000626 dimerization interface [polypeptide binding]; other site 984262000627 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 984262000628 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262000629 dimer interface [polypeptide binding]; other site 984262000630 phosphorylation site [posttranslational modification] 984262000631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262000632 ATP binding site [chemical binding]; other site 984262000633 Mg2+ binding site [ion binding]; other site 984262000634 G-X-G motif; other site 984262000635 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 984262000636 spermidine synthase; Provisional; Region: PRK00811 984262000637 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 984262000638 S-adenosylmethionine binding site [chemical binding]; other site 984262000639 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 984262000640 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 984262000641 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 984262000642 active site 984262000643 catalytic site [active] 984262000644 substrate binding site [chemical binding]; other site 984262000645 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 984262000646 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 984262000647 Catalytic dyad [active] 984262000648 Integrase core domain; Region: rve; pfam00665 984262000649 Integrase core domain; Region: rve_3; cl15866 984262000650 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 984262000651 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 984262000652 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 984262000653 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 984262000654 protein binding site [polypeptide binding]; other site 984262000655 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 984262000656 Catalytic dyad [active] 984262000657 glutamate racemase; Provisional; Region: PRK00865 984262000658 Serine hydrolase (FSH1); Region: FSH1; pfam03959 984262000659 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 984262000660 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 984262000661 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 984262000662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262000663 potential frameshift: common BLAST hit: gi|375013597|ref|YP_004990585.1| transposase 984262000664 Integrase core domain; Region: rve; pfam00665 984262000665 Integrase core domain; Region: rve_3; pfam13683 984262000666 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 984262000667 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 984262000668 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 984262000669 metal ion-dependent adhesion site (MIDAS); other site 984262000670 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 984262000671 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 984262000672 Domain of unknown function DUF59; Region: DUF59; pfam01883 984262000673 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 984262000674 Rab-GTPase-TBC domain; Region: RabGAP-TBC; cl02495 984262000675 Ion transport protein; Region: Ion_trans; pfam00520 984262000676 Ion channel; Region: Ion_trans_2; pfam07885 984262000677 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 984262000678 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 984262000679 putative acyl-acceptor binding pocket; other site 984262000680 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 984262000681 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 984262000682 S-adenosylmethionine binding site [chemical binding]; other site 984262000683 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 984262000684 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 984262000685 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 984262000686 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262000687 catalytic residues [active] 984262000688 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 984262000689 active site residue [active] 984262000690 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 984262000691 active site residue [active] 984262000692 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262000693 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262000694 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 984262000695 Uncharacterized conserved protein [Function unknown]; Region: COG5276 984262000696 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 984262000697 TPR motif; other site 984262000698 TPR repeat; Region: TPR_11; pfam13414 984262000699 binding surface 984262000700 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 984262000701 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 984262000702 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 984262000703 Haem-binding domain; Region: Haem_bd; pfam14376 984262000704 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 984262000705 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 984262000706 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 984262000707 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 984262000708 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 984262000709 trimer interface [polypeptide binding]; other site 984262000710 active site 984262000711 substrate binding site [chemical binding]; other site 984262000712 CoA binding site [chemical binding]; other site 984262000713 LytTr DNA-binding domain; Region: LytTR; smart00850 984262000714 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 984262000715 Beta-lactamase; Region: Beta-lactamase; pfam00144 984262000716 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 984262000717 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 984262000718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000719 Walker A/P-loop; other site 984262000720 ATP binding site [chemical binding]; other site 984262000721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000722 ABC transporter signature motif; other site 984262000723 Walker B; other site 984262000724 D-loop; other site 984262000725 H-loop/switch region; other site 984262000726 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 984262000727 active site 984262000728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000729 AAA domain; Region: AAA_21; pfam13304 984262000730 Walker A/P-loop; other site 984262000731 ATP binding site [chemical binding]; other site 984262000732 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 984262000733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000734 ABC transporter signature motif; other site 984262000735 Walker B; other site 984262000736 D-loop; other site 984262000737 H-loop/switch region; other site 984262000738 Outer membrane efflux protein; Region: OEP; pfam02321 984262000739 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984262000740 HlyD family secretion protein; Region: HlyD_3; pfam13437 984262000741 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 984262000742 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 984262000743 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 984262000744 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 984262000745 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 984262000746 ligand binding site [chemical binding]; other site 984262000747 flexible hinge region; other site 984262000748 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262000749 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000750 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 984262000751 Walker A motif; other site 984262000752 ATP binding site [chemical binding]; other site 984262000753 Walker B motif; other site 984262000754 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000755 Walker A motif; other site 984262000756 ATP binding site [chemical binding]; other site 984262000757 Walker B motif; other site 984262000758 arginine finger; other site 984262000759 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 984262000760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 984262000761 Uncharacterized conserved protein [Function unknown]; Region: COG1624 984262000762 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 984262000763 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 984262000764 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 984262000765 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 984262000766 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000767 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984262000768 recombination protein F; Reviewed; Region: recF; PRK00064 984262000769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262000770 Walker A/P-loop; other site 984262000771 ATP binding site [chemical binding]; other site 984262000772 Q-loop/lid; other site 984262000773 Repair protein; Region: Repair_PSII; pfam04536 984262000774 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 984262000775 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262000776 ligand binding site [chemical binding]; other site 984262000777 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262000778 Integrase core domain; Region: rve; pfam00665 984262000779 Integrase core domain; Region: rve_3; pfam13683 984262000780 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 984262000781 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 984262000782 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 984262000783 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 984262000784 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 984262000785 CRISPR-associated protein; Region: TIGR03986 984262000786 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 984262000787 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 984262000788 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 984262000789 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 984262000790 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 984262000791 Imelysin; Region: Peptidase_M75; pfam09375 984262000792 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 984262000793 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 984262000794 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 984262000795 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 984262000796 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 984262000797 Surface antigen; Region: Bac_surface_Ag; pfam01103 984262000798 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262000799 substrate binding site [chemical binding]; other site 984262000800 activation loop (A-loop); other site 984262000801 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262000802 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262000803 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262000804 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 984262000805 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 984262000806 active site 984262000807 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000808 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 984262000809 heterodimerization interface [polypeptide binding]; other site 984262000810 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000811 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000812 MORN repeat; Region: MORN; pfam02493 984262000813 Caspase domain; Region: Peptidase_C14; pfam00656 984262000814 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 984262000815 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 984262000816 RNA binding surface [nucleotide binding]; other site 984262000817 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 984262000818 active site 984262000819 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 984262000820 putative carbohydrate kinase; Provisional; Region: PRK10565 984262000821 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 984262000822 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 984262000823 putative substrate binding site [chemical binding]; other site 984262000824 putative ATP binding site [chemical binding]; other site 984262000825 Histidine kinase; Region: His_kinase; pfam06580 984262000826 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 984262000827 Mg2+ binding site [ion binding]; other site 984262000828 G-X-G motif; other site 984262000829 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 984262000830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262000831 active site 984262000832 phosphorylation site [posttranslational modification] 984262000833 intermolecular recognition site; other site 984262000834 dimerization interface [polypeptide binding]; other site 984262000835 LytTr DNA-binding domain; Region: LytTR; smart00850 984262000836 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 984262000837 metal ion-dependent adhesion site (MIDAS); other site 984262000838 Protein phosphatase 2C; Region: PP2C_2; pfam13672 984262000839 active site 984262000840 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262000841 active site 984262000842 ATP binding site [chemical binding]; other site 984262000843 substrate binding site [chemical binding]; other site 984262000844 activation loop (A-loop); other site 984262000845 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 984262000846 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 984262000847 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 984262000848 active site 984262000849 DNA binding site [nucleotide binding] 984262000850 Int/Topo IB signature motif; other site 984262000851 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 984262000852 catalytic triad [active] 984262000853 putative active site [active] 984262000854 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000855 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 984262000856 periplasmic chaperone; Provisional; Region: PRK10780 984262000857 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 984262000858 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 984262000859 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 984262000860 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 984262000861 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 984262000862 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262000863 Leucine rich repeat; Region: LRR_8; pfam13855 984262000864 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 984262000865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 984262000866 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 984262000867 catalytic residues [active] 984262000868 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 984262000869 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262000870 putative catalytic residue [active] 984262000871 WYL domain; Region: WYL; pfam13280 984262000872 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262000873 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 984262000874 kynureninase; Region: kynureninase; TIGR01814 984262000875 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262000876 catalytic residue [active] 984262000877 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262000878 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262000879 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 984262000880 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 984262000881 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 984262000882 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262000883 ferrochelatase; Reviewed; Region: hemH; PRK00035 984262000884 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 984262000885 C-terminal domain interface [polypeptide binding]; other site 984262000886 active site 984262000887 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 984262000888 active site 984262000889 N-terminal domain interface [polypeptide binding]; other site 984262000890 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 984262000891 high affinity sulphate transporter 1; Region: sulP; TIGR00815 984262000892 Sulfate transporter family; Region: Sulfate_transp; pfam00916 984262000893 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 984262000894 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262000895 MULE transposase domain; Region: MULE; pfam10551 984262000896 Autotransporter beta-domain; Region: Autotransporter; cl17461 984262000897 DNA gyrase subunit A; Validated; Region: PRK05560 984262000898 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 984262000899 CAP-like domain; other site 984262000900 active site 984262000901 primary dimer interface [polypeptide binding]; other site 984262000902 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984262000903 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984262000904 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984262000905 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984262000906 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984262000907 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984262000908 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 984262000909 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 984262000910 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 984262000911 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 984262000912 Protein of unknown function DUF58; Region: DUF58; pfam01882 984262000913 von Willebrand factor type A domain; Region: VWA_2; pfam13519 984262000914 metal ion-dependent adhesion site (MIDAS); other site 984262000915 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262000916 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262000917 ligand binding site [chemical binding]; other site 984262000918 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 984262000919 Repair protein; Region: Repair_PSII; pfam04536 984262000920 Predicted membrane protein [Function unknown]; Region: COG4270 984262000921 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 984262000922 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 984262000923 ligand binding site [chemical binding]; other site 984262000924 flexible hinge region; other site 984262000925 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 984262000926 active site 984262000927 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 984262000928 aspartate aminotransferase; Provisional; Region: PRK07568 984262000929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262000930 homodimer interface [polypeptide binding]; other site 984262000931 catalytic residue [active] 984262000932 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 984262000933 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 984262000934 active site 984262000935 substrate-binding site [chemical binding]; other site 984262000936 metal-binding site [ion binding] 984262000937 ATP binding site [chemical binding]; other site 984262000938 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984262000939 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984262000940 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 984262000941 dimer interface [polypeptide binding]; other site 984262000942 substrate binding site [chemical binding]; other site 984262000943 metal binding site [ion binding]; metal-binding site 984262000944 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 984262000945 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 984262000946 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262000947 catalytic residues [active] 984262000948 Fic family protein [Function unknown]; Region: COG3177 984262000949 Fic/DOC family; Region: Fic; pfam02661 984262000950 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 984262000951 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 984262000952 Probable Catalytic site; other site 984262000953 metal-binding site 984262000954 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 984262000955 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 984262000956 active site 984262000957 Riboflavin kinase; Region: Flavokinase; pfam01687 984262000958 Bacterial SH3 domain homologues; Region: SH3b; smart00287 984262000959 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262000960 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 984262000961 heme-binding site [chemical binding]; other site 984262000962 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262000963 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 984262000964 Tir chaperone protein (CesT) family; Region: CesT; cl08444 984262000965 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 984262000966 Clp amino terminal domain; Region: Clp_N; pfam02861 984262000967 Clp amino terminal domain; Region: Clp_N; pfam02861 984262000968 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000969 Walker A motif; other site 984262000970 ATP binding site [chemical binding]; other site 984262000971 Walker B motif; other site 984262000972 arginine finger; other site 984262000973 UvrB/uvrC motif; Region: UVR; pfam02151 984262000974 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262000975 Walker A motif; other site 984262000976 ATP binding site [chemical binding]; other site 984262000977 Walker B motif; other site 984262000978 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 984262000979 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 984262000980 anti sigma factor interaction site; other site 984262000981 regulatory phosphorylation site [posttranslational modification]; other site 984262000982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984262000983 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 984262000984 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 984262000985 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 984262000986 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 984262000987 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 984262000988 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 984262000989 Metal-binding active site; metal-binding site 984262000990 Protein of unknown function (DUF420); Region: DUF420; pfam04238 984262000991 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984262000992 GAF domain; Region: GAF; pfam01590 984262000993 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 984262000994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262000995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262000996 ATP binding site [chemical binding]; other site 984262000997 Mg2+ binding site [ion binding]; other site 984262000998 G-X-G motif; other site 984262000999 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 984262001000 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984262001001 TPR motif; other site 984262001002 binding surface 984262001003 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262001004 Sporulation related domain; Region: SPOR; pfam05036 984262001005 Sporulation related domain; Region: SPOR; pfam05036 984262001006 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 984262001007 CoA-transferase family III; Region: CoA_transf_3; pfam02515 984262001008 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 984262001009 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 984262001010 substrate binding pocket [chemical binding]; other site 984262001011 catalytic triad [active] 984262001012 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001013 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 984262001014 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 984262001015 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 984262001016 putative ligand binding site [chemical binding]; other site 984262001017 NAD binding site [chemical binding]; other site 984262001018 dimerization interface [polypeptide binding]; other site 984262001019 catalytic site [active] 984262001020 PAS domain; Region: PAS_9; pfam13426 984262001021 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 984262001022 putative active site [active] 984262001023 heme pocket [chemical binding]; other site 984262001024 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 984262001025 PAS domain; Region: PAS_9; pfam13426 984262001026 putative active site [active] 984262001027 heme pocket [chemical binding]; other site 984262001028 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 984262001029 PAS domain; Region: PAS_9; pfam13426 984262001030 putative active site [active] 984262001031 heme pocket [chemical binding]; other site 984262001032 PAS domain; Region: PAS_8; pfam13188 984262001033 PAS domain; Region: PAS_9; pfam13426 984262001034 putative active site [active] 984262001035 heme pocket [chemical binding]; other site 984262001036 PAS domain S-box; Region: sensory_box; TIGR00229 984262001037 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 984262001038 putative active site [active] 984262001039 heme pocket [chemical binding]; other site 984262001040 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 984262001041 Histidine kinase; Region: HisKA_3; pfam07730 984262001042 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262001043 ATP binding site [chemical binding]; other site 984262001044 Mg2+ binding site [ion binding]; other site 984262001045 G-X-G motif; other site 984262001046 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 984262001047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262001048 active site 984262001049 phosphorylation site [posttranslational modification] 984262001050 intermolecular recognition site; other site 984262001051 dimerization interface [polypeptide binding]; other site 984262001052 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 984262001053 DNA binding residues [nucleotide binding] 984262001054 dimerization interface [polypeptide binding]; other site 984262001055 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 984262001056 binding surface 984262001057 TPR motif; other site 984262001058 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 984262001059 binding surface 984262001060 TPR motif; other site 984262001061 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 984262001062 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262001063 catalytic residues [active] 984262001064 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 984262001065 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984262001066 putative acyl-acceptor binding pocket; other site 984262001067 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 984262001068 DNA polymerase IV (family X) [DNA replication, recombination, and repair]; Region: POL4; COG1796 984262001069 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 984262001070 metal binding triad [ion binding]; metal-binding site 984262001071 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 984262001072 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 984262001073 active site 984262001074 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 984262001075 substrate binding pocket [chemical binding]; other site 984262001076 substrate-Mg2+ binding site; other site 984262001077 aspartate-rich region 1; other site 984262001078 aspartate-rich region 2; other site 984262001079 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 984262001080 active site 984262001081 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 984262001082 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 984262001083 tetramerization interface [polypeptide binding]; other site 984262001084 active site 984262001085 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 984262001086 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262001087 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 984262001088 DNA binding residues [nucleotide binding] 984262001089 Anti-sigma-K factor rskA; Region: RskA; pfam10099 984262001090 Predicted transcriptional regulator [Transcription]; Region: COG2932 984262001091 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 984262001092 Catalytic site [active] 984262001093 enolase; Provisional; Region: eno; PRK00077 984262001094 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 984262001095 dimer interface [polypeptide binding]; other site 984262001096 metal binding site [ion binding]; metal-binding site 984262001097 substrate binding pocket [chemical binding]; other site 984262001098 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 984262001099 Ligand binding site; other site 984262001100 Putative Catalytic site; other site 984262001101 DXD motif; other site 984262001102 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 984262001103 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 984262001104 GTPase CgtA; Reviewed; Region: obgE; PRK12299 984262001105 GTP1/OBG; Region: GTP1_OBG; pfam01018 984262001106 Obg GTPase; Region: Obg; cd01898 984262001107 G1 box; other site 984262001108 GTP/Mg2+ binding site [chemical binding]; other site 984262001109 Switch I region; other site 984262001110 G2 box; other site 984262001111 G3 box; other site 984262001112 Switch II region; other site 984262001113 G4 box; other site 984262001114 G5 box; other site 984262001115 adenylate kinase; Reviewed; Region: adk; PRK00279 984262001116 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 984262001117 AMP-binding site [chemical binding]; other site 984262001118 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 984262001119 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 984262001120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984262001121 NAD(P) binding site [chemical binding]; other site 984262001122 active site 984262001123 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 984262001124 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 984262001125 substrate-cofactor binding pocket; other site 984262001126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262001127 catalytic residue [active] 984262001128 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 984262001129 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 984262001130 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 984262001131 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984262001132 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 984262001133 FeS/SAM binding site; other site 984262001134 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 984262001135 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 984262001136 Phosphotransferase enzyme family; Region: APH; pfam01636 984262001137 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 984262001138 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 984262001139 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 984262001140 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 984262001141 acyl-activating enzyme (AAE) consensus motif; other site 984262001142 AMP binding site [chemical binding]; other site 984262001143 active site 984262001144 CoA binding site [chemical binding]; other site 984262001145 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262001146 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262001147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262001148 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262001149 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262001150 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 984262001151 DNA-binding interface [nucleotide binding]; DNA binding site 984262001152 HTH-like domain; Region: HTH_21; pfam13276 984262001153 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262001154 Integrase core domain; Region: rve; pfam00665 984262001155 Integrase core domain; Region: rve_3; pfam13683 984262001156 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 984262001157 periplasmic chaperone; Provisional; Region: PRK10780 984262001158 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 984262001159 intermolecular salt bridges; other site 984262001160 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 984262001161 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 984262001162 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 984262001163 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 984262001164 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 984262001165 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 984262001166 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 984262001167 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 984262001168 hypothetical protein; Provisional; Region: PRK10436 984262001169 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 984262001170 Walker A motif; other site 984262001171 ATP binding site [chemical binding]; other site 984262001172 Walker B motif; other site 984262001173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262001174 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 984262001175 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984262001176 NAD(P) binding site [chemical binding]; other site 984262001177 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 984262001178 NlpC/P60 family; Region: NLPC_P60; pfam00877 984262001179 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 984262001180 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984262001181 metal binding site 2 [ion binding]; metal-binding site 984262001182 putative DNA binding helix; other site 984262001183 metal binding site 1 [ion binding]; metal-binding site 984262001184 dimer interface [polypeptide binding]; other site 984262001185 structural Zn2+ binding site [ion binding]; other site 984262001186 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 984262001187 anti sigma factor interaction site; other site 984262001188 regulatory phosphorylation site [posttranslational modification]; other site 984262001189 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 984262001190 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 984262001191 GDP-binding site [chemical binding]; other site 984262001192 ACT binding site; other site 984262001193 IMP binding site; other site 984262001194 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 984262001195 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 984262001196 Catalytic site [active] 984262001197 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 984262001198 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 984262001199 Ligand binding site; other site 984262001200 Putative Catalytic site; other site 984262001201 DXD motif; other site 984262001202 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 984262001203 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 984262001204 TRAM domain; Region: TRAM; pfam01938 984262001205 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 984262001206 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 984262001207 S-adenosylmethionine binding site [chemical binding]; other site 984262001208 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984262001209 Coenzyme A binding pocket [chemical binding]; other site 984262001210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984262001211 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 984262001212 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 984262001213 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984262001214 MarR family; Region: MarR; pfam01047 984262001215 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 984262001216 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262001217 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 984262001218 active site 984262001219 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 984262001220 Lipopolysaccharide-assembly; Region: LptE; pfam04390 984262001221 isocitrate dehydrogenase; Validated; Region: PRK09222 984262001222 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 984262001223 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 984262001224 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984262001225 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 984262001226 S-adenosylmethionine binding site [chemical binding]; other site 984262001227 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 984262001228 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 984262001229 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 984262001230 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 984262001231 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 984262001232 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 984262001233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262001234 putative ADP-binding pocket [chemical binding]; other site 984262001235 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 984262001236 Permease; Region: Permease; pfam02405 984262001237 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 984262001238 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 984262001239 Walker A/P-loop; other site 984262001240 ATP binding site [chemical binding]; other site 984262001241 Q-loop/lid; other site 984262001242 ABC transporter signature motif; other site 984262001243 Walker B; other site 984262001244 D-loop; other site 984262001245 H-loop/switch region; other site 984262001246 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 984262001247 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262001248 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 984262001249 DNA binding residues [nucleotide binding] 984262001250 DinB family; Region: DinB; cl17821 984262001251 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001252 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001253 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001254 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001255 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001256 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001257 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001258 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001259 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001260 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001261 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001262 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001263 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 984262001264 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 984262001265 Penicillinase repressor; Region: Pencillinase_R; cl17580 984262001266 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262001267 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 984262001268 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262001269 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 984262001270 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 984262001271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984262001272 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984262001273 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984262001274 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 984262001275 ribonuclease R; Region: RNase_R; TIGR02063 984262001276 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 984262001277 RNB domain; Region: RNB; pfam00773 984262001278 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 984262001279 RNA binding site [nucleotide binding]; other site 984262001280 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 984262001281 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 984262001282 homotetramer interface [polypeptide binding]; other site 984262001283 ligand binding site [chemical binding]; other site 984262001284 catalytic site [active] 984262001285 NAD binding site [chemical binding]; other site 984262001286 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 984262001287 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 984262001288 putative NAD(P) binding site [chemical binding]; other site 984262001289 putative substrate binding site [chemical binding]; other site 984262001290 catalytic Zn binding site [ion binding]; other site 984262001291 structural Zn binding site [ion binding]; other site 984262001292 dimer interface [polypeptide binding]; other site 984262001293 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984262001294 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 984262001295 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262001296 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984262001297 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 984262001298 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262001299 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 984262001300 primosomal protein N' Region: priA; TIGR00595 984262001301 ATP binding site [chemical binding]; other site 984262001302 putative Mg++ binding site [ion binding]; other site 984262001303 helicase superfamily c-terminal domain; Region: HELICc; smart00490 984262001304 ATP-binding site [chemical binding]; other site 984262001305 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001306 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001307 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001308 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 984262001309 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001310 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001311 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001312 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 984262001313 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 984262001314 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001315 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 984262001316 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984262001317 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262001318 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 984262001319 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984262001320 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262001321 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 984262001322 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262001323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262001324 ABC transporter; Region: ABC_tran_2; pfam12848 984262001325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262001326 Walker A/P-loop; other site 984262001327 ATP binding site [chemical binding]; other site 984262001328 Q-loop/lid; other site 984262001329 MG2 domain; Region: A2M_N; pfam01835 984262001330 Peptidase S46; Region: Peptidase_S46; pfam10459 984262001331 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984262001332 TPR repeat; Region: TPR_11; pfam13414 984262001333 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 984262001334 binding surface 984262001335 TPR motif; other site 984262001336 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 984262001337 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 984262001338 RNA binding site [nucleotide binding]; other site 984262001339 active site 984262001340 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 984262001341 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 984262001342 Ligand Binding Site [chemical binding]; other site 984262001343 TilS substrate C-terminal domain; Region: TilS_C; smart00977 984262001344 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 984262001345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262001346 active site 984262001347 phosphorylation site [posttranslational modification] 984262001348 intermolecular recognition site; other site 984262001349 dimerization interface [polypeptide binding]; other site 984262001350 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262001351 Walker A motif; other site 984262001352 ATP binding site [chemical binding]; other site 984262001353 Walker B motif; other site 984262001354 arginine finger; other site 984262001355 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 984262001356 ParB-like nuclease domain; Region: ParBc; pfam02195 984262001357 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 984262001358 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 984262001359 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262001360 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262001361 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 984262001362 binding surface 984262001363 TPR motif; other site 984262001364 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262001365 CHAT domain; Region: CHAT; pfam12770 984262001366 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 984262001367 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 984262001368 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 984262001369 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 984262001370 tetramer interface [polypeptide binding]; other site 984262001371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262001372 catalytic residue [active] 984262001373 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 984262001374 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 984262001375 dimer interface [polypeptide binding]; other site 984262001376 active site 984262001377 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 984262001378 active site 984262001379 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cd06263 984262001380 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cd06263 984262001381 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001382 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 984262001383 ligand binding site [chemical binding]; other site 984262001384 active site 984262001385 UGI interface [polypeptide binding]; other site 984262001386 catalytic site [active] 984262001387 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 984262001388 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 984262001389 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 984262001390 minor groove reading motif; other site 984262001391 helix-hairpin-helix signature motif; other site 984262001392 substrate binding pocket [chemical binding]; other site 984262001393 active site 984262001394 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 984262001395 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 984262001396 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262001397 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 984262001398 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 984262001399 DNA binding residues [nucleotide binding] 984262001400 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 984262001401 hydrophobic ligand binding site; other site 984262001402 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 984262001403 Short C-terminal domain; Region: SHOCT; pfam09851 984262001404 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 984262001405 Transglycosylase; Region: Transgly; pfam00912 984262001406 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 984262001407 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 984262001408 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984262001409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262001410 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 984262001411 DNA-binding interface [nucleotide binding]; DNA binding site 984262001412 putative transposase OrfB; Reviewed; Region: PHA02517 984262001413 HTH-like domain; Region: HTH_21; pfam13276 984262001414 Integrase core domain; Region: rve; pfam00665 984262001415 Integrase core domain; Region: rve_3; pfam13683 984262001416 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262001417 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 984262001418 putative active site [active] 984262001419 putative metal binding site [ion binding]; other site 984262001420 MG2 domain; Region: A2M_N; pfam01835 984262001421 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 984262001422 Pleckstrin homology-like domain; Region: PH-like; cl17171 984262001423 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262001424 AAA domain; Region: AAA_23; pfam13476 984262001425 AAA domain; Region: AAA_21; pfam13304 984262001426 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 984262001427 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 984262001428 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 984262001429 Preprotein translocase SecG subunit; Region: SecG; cl09123 984262001430 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 984262001431 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 984262001432 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262001433 catalytic residues [active] 984262001434 Uncharacterized conserved protein [Function unknown]; Region: COG1434 984262001435 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 984262001436 putative active site [active] 984262001437 GH3 auxin-responsive promoter; Region: GH3; pfam03321 984262001438 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 984262001439 metal ion-dependent adhesion site (MIDAS); other site 984262001440 EamA-like transporter family; Region: EamA; pfam00892 984262001441 pantothenate kinase; Reviewed; Region: PRK13320 984262001442 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 984262001443 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 984262001444 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 984262001445 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 984262001446 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 984262001447 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 984262001448 Amidohydrolase; Region: Amidohydro_4; pfam13147 984262001449 active site 984262001450 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 984262001451 active site 984262001452 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 984262001453 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 984262001454 active site 984262001455 Part of AAA domain; Region: AAA_19; pfam13245 984262001456 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 984262001457 AAA domain; Region: AAA_12; pfam13087 984262001458 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001459 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 984262001460 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 984262001461 active site 984262001462 interdomain interaction site; other site 984262001463 putative metal-binding site [ion binding]; other site 984262001464 nucleotide binding site [chemical binding]; other site 984262001465 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 984262001466 domain I; other site 984262001467 DNA binding groove [nucleotide binding] 984262001468 phosphate binding site [ion binding]; other site 984262001469 domain II; other site 984262001470 domain III; other site 984262001471 nucleotide binding site [chemical binding]; other site 984262001472 catalytic site [active] 984262001473 domain IV; other site 984262001474 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 984262001475 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 984262001476 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 984262001477 acyl-CoA esterase; Provisional; Region: PRK10673 984262001478 PGAP1-like protein; Region: PGAP1; pfam07819 984262001479 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262001480 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262001481 ligand binding site [chemical binding]; other site 984262001482 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262001483 Bifunctional nuclease; Region: DNase-RNase; pfam02577 984262001484 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 984262001485 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 984262001486 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 984262001487 dimerization interface [polypeptide binding]; other site 984262001488 active site 984262001489 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 984262001490 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 984262001491 active site 984262001492 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 984262001493 active site 984262001494 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001495 cell division protein MraZ; Reviewed; Region: PRK00326 984262001496 MraZ protein; Region: MraZ; pfam02381 984262001497 MraZ protein; Region: MraZ; pfam02381 984262001498 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 984262001499 MraW methylase family; Region: Methyltransf_5; cl17771 984262001500 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 984262001501 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 984262001502 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 984262001503 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 984262001504 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 984262001505 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984262001506 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984262001507 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984262001508 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262001509 Leucine-rich repeats; other site 984262001510 Leucine rich repeat; Region: LRR_8; pfam13855 984262001511 Leucine rich repeat; Region: LRR_8; pfam13855 984262001512 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 984262001513 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 984262001514 Mg++ binding site [ion binding]; other site 984262001515 putative catalytic motif [active] 984262001516 putative substrate binding site [chemical binding]; other site 984262001517 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 984262001518 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984262001519 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984262001520 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 984262001521 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 984262001522 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 984262001523 active site 984262001524 homodimer interface [polypeptide binding]; other site 984262001525 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 984262001526 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984262001527 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984262001528 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984262001529 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 984262001530 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 984262001531 Cell division protein FtsA; Region: FtsA; smart00842 984262001532 Cell division protein FtsA; Region: FtsA; pfam14450 984262001533 cell division protein FtsZ; Validated; Region: PRK09330 984262001534 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 984262001535 nucleotide binding site [chemical binding]; other site 984262001536 SulA interaction site; other site 984262001537 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001538 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001539 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262001540 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984262001542 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984262001543 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 984262001544 putative active site [active] 984262001545 putative metal binding site [ion binding]; other site 984262001546 Peptidase family M23; Region: Peptidase_M23; pfam01551 984262001547 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 984262001548 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; cl00148 984262001549 CAP-like domain; other site 984262001550 active site 984262001551 primary dimer interface [polypeptide binding]; other site 984262001552 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 984262001553 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 984262001554 NAD(P) binding site [chemical binding]; other site 984262001555 catalytic residues [active] 984262001556 chaperone protein HscA; Provisional; Region: hscA; PRK05183 984262001557 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 984262001558 nucleotide binding site [chemical binding]; other site 984262001559 putative NEF/HSP70 interaction site [polypeptide binding]; other site 984262001560 SBD interface [polypeptide binding]; other site 984262001561 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 984262001562 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 984262001563 NADP binding site [chemical binding]; other site 984262001564 active site 984262001565 putative substrate binding site [chemical binding]; other site 984262001566 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 984262001567 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 984262001568 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 984262001569 active site 984262001570 HIGH motif; other site 984262001571 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262001572 active site 984262001573 KMSKS motif; other site 984262001574 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 984262001575 tRNA binding surface [nucleotide binding]; other site 984262001576 anticodon binding site; other site 984262001577 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 984262001578 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 984262001579 active site 984262001580 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262001581 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262001582 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 984262001583 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 984262001584 RNA binding surface [nucleotide binding]; other site 984262001585 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 984262001586 probable active site [active] 984262001587 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262001588 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 984262001589 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 984262001590 S-adenosylmethionine binding site [chemical binding]; other site 984262001591 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 984262001592 G1 box; other site 984262001593 GTP/Mg2+ binding site [chemical binding]; other site 984262001594 Switch I region; other site 984262001595 G2 box; other site 984262001596 G3 box; other site 984262001597 Switch II region; other site 984262001598 G4 box; other site 984262001599 G5 box; other site 984262001600 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 984262001601 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 984262001602 Predicted methyltransferases [General function prediction only]; Region: COG0313 984262001603 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 984262001604 putative SAM binding site [chemical binding]; other site 984262001605 putative homodimer interface [polypeptide binding]; other site 984262001606 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 984262001607 active site 984262001608 substrate binding site [chemical binding]; other site 984262001609 catalytic site [active] 984262001610 Repair protein; Region: Repair_PSII; pfam04536 984262001611 Repair protein; Region: Repair_PSII; pfam04536 984262001612 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 984262001613 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 984262001614 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 984262001615 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 984262001616 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 984262001617 dimer interface [polypeptide binding]; other site 984262001618 anticodon binding site; other site 984262001619 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 984262001620 motif 1; other site 984262001621 dimer interface [polypeptide binding]; other site 984262001622 active site 984262001623 motif 2; other site 984262001624 GAD domain; Region: GAD; pfam02938 984262001625 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 984262001626 active site 984262001627 motif 3; other site 984262001628 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 984262001629 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262001630 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 984262001631 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 984262001632 Surface antigen; Region: Bac_surface_Ag; pfam01103 984262001633 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 984262001634 CoenzymeA binding site [chemical binding]; other site 984262001635 subunit interaction site [polypeptide binding]; other site 984262001636 PHB binding site; other site 984262001637 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 984262001638 ATP cone domain; Region: ATP-cone; pfam03477 984262001639 Class I ribonucleotide reductase; Region: RNR_I; cd01679 984262001640 active site 984262001641 dimer interface [polypeptide binding]; other site 984262001642 catalytic residues [active] 984262001643 effector binding site; other site 984262001644 R2 peptide binding site; other site 984262001645 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 984262001646 dimer interface [polypeptide binding]; other site 984262001647 putative radical transfer pathway; other site 984262001648 diiron center [ion binding]; other site 984262001649 tyrosyl radical; other site 984262001650 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 984262001651 active site 984262001652 catalytic triad [active] 984262001653 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984262001654 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 984262001655 Walker A/P-loop; other site 984262001656 ATP binding site [chemical binding]; other site 984262001657 Q-loop/lid; other site 984262001658 ABC transporter signature motif; other site 984262001659 Walker B; other site 984262001660 D-loop; other site 984262001661 H-loop/switch region; other site 984262001662 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 984262001663 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 984262001664 Fatty acid desaturase; Region: FA_desaturase; pfam00487 984262001665 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 984262001666 putative di-iron ligands [ion binding]; other site 984262001667 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 984262001668 heat shock protein 90; Provisional; Region: PRK05218 984262001669 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262001670 ATP binding site [chemical binding]; other site 984262001671 Mg2+ binding site [ion binding]; other site 984262001672 G-X-G motif; other site 984262001673 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 984262001674 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 984262001675 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 984262001676 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 984262001677 tetramer interface [polypeptide binding]; other site 984262001678 heme binding pocket [chemical binding]; other site 984262001679 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 984262001680 active site 984262001681 baseplate wedge subunit; Provisional; Region: 7; PHA02579 984262001682 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262001683 malate dehydrogenase; Reviewed; Region: PRK06223 984262001684 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 984262001685 NAD(P) binding site [chemical binding]; other site 984262001686 dimer interface [polypeptide binding]; other site 984262001687 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984262001688 substrate binding site [chemical binding]; other site 984262001689 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262001690 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262001691 CHAT domain; Region: CHAT; cl17868 984262001692 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 984262001693 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262001694 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 984262001695 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 984262001696 Methyltransferase domain; Region: Methyltransf_23; pfam13489 984262001697 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 984262001698 active site 984262001699 ligand binding site [chemical binding]; other site 984262001700 NAD(P) binding site [chemical binding]; other site 984262001701 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 984262001702 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 984262001703 DNA-binding interface [nucleotide binding]; DNA binding site 984262001704 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262001705 Integrase core domain; Region: rve; pfam00665 984262001706 Integrase core domain; Region: rve_3; pfam13683 984262001707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262001708 Integrase core domain; Region: rve_3; pfam13683 984262001709 HTH-like domain; Region: HTH_21; pfam13276 984262001710 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 984262001711 DNA-binding interface [nucleotide binding]; DNA binding site 984262001712 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 984262001713 active site 984262001714 substrate binding site [chemical binding]; other site 984262001715 catalytic site [active] 984262001716 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 984262001717 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 984262001718 ATP binding site [chemical binding]; other site 984262001719 putative Mg++ binding site [ion binding]; other site 984262001720 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 984262001721 nucleotide binding region [chemical binding]; other site 984262001722 ATP-binding site [chemical binding]; other site 984262001723 Part of AAA domain; Region: AAA_19; pfam13245 984262001724 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 984262001725 Family description; Region: UvrD_C_2; pfam13538 984262001726 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 984262001727 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 984262001728 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 984262001729 dimer interface [polypeptide binding]; other site 984262001730 active site 984262001731 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984262001732 catalytic residues [active] 984262001733 substrate binding site [chemical binding]; other site 984262001734 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 984262001735 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 984262001736 binding surface 984262001737 TPR motif; other site 984262001738 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262001739 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262001740 ligand binding site [chemical binding]; other site 984262001741 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262001742 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262001743 ligand binding site [chemical binding]; other site 984262001744 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262001745 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262001746 ligand binding site [chemical binding]; other site 984262001747 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 984262001748 Cytochrome P450; Region: p450; pfam00067 984262001749 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 984262001750 Flavodoxin; Region: Flavodoxin_1; pfam00258 984262001751 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 984262001752 FAD binding pocket [chemical binding]; other site 984262001753 FAD binding motif [chemical binding]; other site 984262001754 catalytic residues [active] 984262001755 NAD binding pocket [chemical binding]; other site 984262001756 phosphate binding motif [ion binding]; other site 984262001757 beta-alpha-beta structure motif; other site 984262001758 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984262001759 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 984262001760 RNA binding surface [nucleotide binding]; other site 984262001761 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984262001762 active site 984262001763 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 984262001764 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 984262001765 oligomer interface [polypeptide binding]; other site 984262001766 active site 984262001767 metal binding site [ion binding]; metal-binding site 984262001768 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 984262001769 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 984262001770 5S rRNA interface [nucleotide binding]; other site 984262001771 CTC domain interface [polypeptide binding]; other site 984262001772 L16 interface [polypeptide binding]; other site 984262001773 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 984262001774 putative active site [active] 984262001775 catalytic residue [active] 984262001776 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 984262001777 active site 984262001778 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984262001779 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 984262001780 putative acyl-acceptor binding pocket; other site 984262001781 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 984262001782 HemN C-terminal domain; Region: HemN_C; pfam06969 984262001783 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 984262001784 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 984262001785 metal binding site [ion binding]; metal-binding site 984262001786 dimer interface [polypeptide binding]; other site 984262001787 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 984262001788 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984262001789 putative active site [active] 984262001790 putative NTP binding site [chemical binding]; other site 984262001791 putative nucleic acid binding site [nucleotide binding]; other site 984262001792 SWIM zinc finger; Region: SWIM; pfam04434 984262001793 WGR domain of bacterial DNA ligases; Region: WGR_DNA_ligase; cd07998 984262001794 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 984262001795 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 984262001796 active site 984262001797 substrate binding site [chemical binding]; other site 984262001798 Mg2+ binding site [ion binding]; other site 984262001799 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984262001800 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 984262001801 S-adenosylmethionine binding site [chemical binding]; other site 984262001802 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 984262001803 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262001804 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 984262001805 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262001806 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 984262001807 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984262001808 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262001809 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 984262001810 DNA binding residues [nucleotide binding] 984262001811 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262001812 CHAT domain; Region: CHAT; pfam12770 984262001813 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 984262001814 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 984262001815 AMP binding site [chemical binding]; other site 984262001816 metal binding site [ion binding]; metal-binding site 984262001817 active site 984262001818 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 984262001819 Flavoprotein; Region: Flavoprotein; pfam02441 984262001820 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 984262001821 Peptidase family M23; Region: Peptidase_M23; pfam01551 984262001822 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262001823 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 984262001824 TPR motif; other site 984262001825 binding surface 984262001826 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262001827 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262001828 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262001829 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 984262001830 Predicted transcriptional regulator [Transcription]; Region: COG2932 984262001831 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 984262001832 Catalytic site [active] 984262001833 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984262001834 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262001835 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 984262001836 DNA binding residues [nucleotide binding] 984262001837 4Fe-4S binding domain; Region: Fer4; pfam00037 984262001838 GH3 auxin-responsive promoter; Region: GH3; pfam03321 984262001839 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262001840 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262001841 ligand binding site [chemical binding]; other site 984262001842 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 984262001843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984262001844 Coenzyme A binding pocket [chemical binding]; other site 984262001845 Protein of unknown function, DUF481; Region: DUF481; cl01213 984262001846 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 984262001847 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 984262001848 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 984262001849 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262001850 catalytic residue [active] 984262001851 methionine sulfoxide reductase B; Provisional; Region: PRK00222 984262001852 SelR domain; Region: SelR; pfam01641 984262001853 beta-carotene hydroxylase; Region: PLN02601 984262001854 Protein of unknown function (DUF422); Region: DUF422; cl00991 984262001855 phytoene desaturase; Region: crtI_fam; TIGR02734 984262001856 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984262001857 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 984262001858 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 984262001859 putative active site [active] 984262001860 Zn binding site [ion binding]; other site 984262001861 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 984262001862 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262001863 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 984262001864 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 984262001865 putative active site [active] 984262001866 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 984262001867 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 984262001868 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 984262001869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984262001870 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 984262001871 NAD(P) binding site [chemical binding]; other site 984262001872 active site 984262001873 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 984262001874 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 984262001875 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 984262001876 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 984262001877 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 984262001878 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 984262001879 active site 984262001880 catalytic residues [active] 984262001881 metal binding site [ion binding]; metal-binding site 984262001882 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 984262001883 Outer membrane efflux protein; Region: OEP; pfam02321 984262001884 Outer membrane efflux protein; Region: OEP; pfam02321 984262001885 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 984262001886 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984262001887 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 984262001888 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 984262001889 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 984262001890 FeS/SAM binding site; other site 984262001891 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 984262001892 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cl01244 984262001893 cofactor binding site; other site 984262001894 metal binding site [ion binding]; metal-binding site 984262001895 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 984262001896 DinB superfamily; Region: DinB_2; pfam12867 984262001897 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 984262001898 Cysteine-rich domain; Region: CCG; pfam02754 984262001899 Cysteine-rich domain; Region: CCG; pfam02754 984262001900 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 984262001901 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262001902 putative catalytic residue [active] 984262001903 TraB family; Region: TraB; pfam01963 984262001904 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 984262001905 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984262001906 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984262001907 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 984262001908 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 984262001909 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984262001910 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 984262001911 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262001912 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 984262001913 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 984262001914 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 984262001915 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 984262001916 active site 984262001917 Zn binding site [ion binding]; other site 984262001918 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 984262001919 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 984262001920 catalytic loop [active] 984262001921 iron binding site [ion binding]; other site 984262001922 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 984262001923 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 984262001924 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 984262001925 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 984262001926 hypothetical protein; Provisional; Region: PRK08201 984262001927 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 984262001928 metal binding site [ion binding]; metal-binding site 984262001929 putative dimer interface [polypeptide binding]; other site 984262001930 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 984262001931 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 984262001932 homotrimer interaction site [polypeptide binding]; other site 984262001933 putative active site [active] 984262001934 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 984262001935 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 984262001936 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 984262001937 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 984262001938 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 984262001939 Recombination protein O N terminal; Region: RecO_N; pfam11967 984262001940 Recombination protein O C terminal; Region: RecO_C; pfam02565 984262001941 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 984262001942 putative metal binding site; other site 984262001943 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 984262001944 active site 984262001945 translation initiation factor IF-2; Region: IF-2; TIGR00487 984262001946 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 984262001947 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 984262001948 G1 box; other site 984262001949 putative GEF interaction site [polypeptide binding]; other site 984262001950 GTP/Mg2+ binding site [chemical binding]; other site 984262001951 Switch I region; other site 984262001952 G2 box; other site 984262001953 G3 box; other site 984262001954 Switch II region; other site 984262001955 G4 box; other site 984262001956 G5 box; other site 984262001957 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 984262001958 Translation-initiation factor 2; Region: IF-2; pfam11987 984262001959 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 984262001960 transcription termination factor NusA; Region: NusA; TIGR01953 984262001961 NusA N-terminal domain; Region: NusA_N; pfam08529 984262001962 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 984262001963 RNA binding site [nucleotide binding]; other site 984262001964 homodimer interface [polypeptide binding]; other site 984262001965 NusA-like KH domain; Region: KH_5; pfam13184 984262001966 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 984262001967 G-X-X-G motif; other site 984262001968 ribosome maturation protein RimP; Reviewed; Region: PRK00092 984262001969 Sm and related proteins; Region: Sm_like; cl00259 984262001970 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 984262001971 putative oligomer interface [polypeptide binding]; other site 984262001972 putative RNA binding site [nucleotide binding]; other site 984262001973 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984262001974 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 984262001975 short chain dehydrogenase; Provisional; Region: PRK08278 984262001976 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 984262001977 NAD(P) binding site [chemical binding]; other site 984262001978 homodimer interface [polypeptide binding]; other site 984262001979 active site 984262001980 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 984262001981 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262001982 Walker A motif; other site 984262001983 ATP binding site [chemical binding]; other site 984262001984 Walker B motif; other site 984262001985 arginine finger; other site 984262001986 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 984262001987 active site 984262001988 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 984262001989 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_5; cd04962 984262001990 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 984262001991 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 984262001992 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 984262001993 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 984262001994 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 984262001995 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 984262001996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 984262001997 S-adenosylmethionine synthetase; Validated; Region: PRK05250 984262001998 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 984262001999 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 984262002000 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 984262002001 methionine sulfoxide reductase B; Provisional; Region: PRK00222 984262002002 SelR domain; Region: SelR; pfam01641 984262002003 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 984262002004 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 984262002005 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 984262002006 putative trimer interface [polypeptide binding]; other site 984262002007 putative CoA binding site [chemical binding]; other site 984262002008 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 984262002009 S-adenosylmethionine binding site [chemical binding]; other site 984262002010 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262002011 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262002012 ligand binding site [chemical binding]; other site 984262002013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262002014 ATP binding site [chemical binding]; other site 984262002015 Mg2+ binding site [ion binding]; other site 984262002016 G-X-G motif; other site 984262002017 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 984262002018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262002019 active site 984262002020 phosphorylation site [posttranslational modification] 984262002021 intermolecular recognition site; other site 984262002022 dimerization interface [polypeptide binding]; other site 984262002023 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 984262002024 DNA binding residues [nucleotide binding] 984262002025 dimerization interface [polypeptide binding]; other site 984262002026 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 984262002027 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 984262002028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262002029 catalytic residue [active] 984262002030 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 984262002031 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984262002032 Zn2+ binding site [ion binding]; other site 984262002033 Mg2+ binding site [ion binding]; other site 984262002034 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 984262002035 synthetase active site [active] 984262002036 metal binding site [ion binding]; metal-binding site 984262002037 NTP binding site [chemical binding]; other site 984262002038 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 984262002039 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 984262002040 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 984262002041 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 984262002042 tandem repeat interface [polypeptide binding]; other site 984262002043 oligomer interface [polypeptide binding]; other site 984262002044 active site residues [active] 984262002045 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 984262002046 tandem repeat interface [polypeptide binding]; other site 984262002047 oligomer interface [polypeptide binding]; other site 984262002048 active site residues [active] 984262002049 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 984262002050 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 984262002051 substrate binding site [chemical binding]; other site 984262002052 oxyanion hole (OAH) forming residues; other site 984262002053 trimer interface [polypeptide binding]; other site 984262002054 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 984262002055 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 984262002056 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 984262002057 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 984262002058 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 984262002059 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 984262002060 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 984262002061 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 984262002062 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 984262002063 dimer interface [polypeptide binding]; other site 984262002064 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 984262002065 active site 984262002066 Fe binding site [ion binding]; other site 984262002067 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 984262002068 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262002069 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 984262002070 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 984262002071 HSP70 interaction site [polypeptide binding]; other site 984262002072 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 984262002073 Zn binding sites [ion binding]; other site 984262002074 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 984262002075 dimer interface [polypeptide binding]; other site 984262002076 GrpE; Region: GrpE; pfam01025 984262002077 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 984262002078 dimer interface [polypeptide binding]; other site 984262002079 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 984262002080 Integrase core domain; Region: rve; pfam00665 984262002081 Integrase core domain; Region: rve_3; pfam13683 984262002082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262002083 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 984262002084 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 984262002085 NEF interaction site [polypeptide binding]; other site 984262002086 nucleotide binding site [chemical binding]; other site 984262002087 SBD interface [polypeptide binding]; other site 984262002088 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262002089 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 984262002090 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 984262002091 active site 984262002092 Integrase core domain; Region: rve; pfam00665 984262002093 Integrase core domain; Region: rve_3; pfam13683 984262002094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262002095 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 984262002096 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 984262002097 active site 984262002098 diphosphomevalonate decarboxylase; Region: PLN02407 984262002099 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 984262002100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262002101 Integrase core domain; Region: rve; pfam00665 984262002102 Integrase core domain; Region: rve_3; pfam13683 984262002103 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 984262002104 DNA-binding interface [nucleotide binding]; DNA binding site 984262002105 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 984262002106 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 984262002107 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 984262002108 putative active site [active] 984262002109 putative metal binding site [ion binding]; other site 984262002110 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 984262002111 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 984262002112 putative metal binding site [ion binding]; other site 984262002113 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 984262002114 HSP70 interaction site [polypeptide binding]; other site 984262002115 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 984262002116 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 984262002117 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 984262002118 Zn binding site [ion binding]; other site 984262002119 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 984262002120 active site 984262002121 catalytic triad [active] 984262002122 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 984262002123 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262002124 FOG: PKD repeat [General function prediction only]; Region: COG3291 984262002125 FOG: PKD repeat [General function prediction only]; Region: COG3291 984262002126 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262002127 TQO small subunit DoxD; Region: DoxD; pfam04173 984262002128 TQO small subunit DoxA; Region: DoxA; pfam07680 984262002129 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 984262002130 futalosine nucleosidase; Region: fut_nucase; TIGR03664 984262002131 NRDE protein; Region: NRDE; cl01315 984262002132 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984262002133 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984262002134 Walker A/P-loop; other site 984262002135 ATP binding site [chemical binding]; other site 984262002136 Q-loop/lid; other site 984262002137 ABC transporter signature motif; other site 984262002138 Walker B; other site 984262002139 D-loop; other site 984262002140 H-loop/switch region; other site 984262002141 Right handed beta helix region; Region: Beta_helix; pfam13229 984262002142 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262002143 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002144 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 984262002145 DNA photolyase; Region: DNA_photolyase; pfam00875 984262002146 MoxR-like ATPases [General function prediction only]; Region: COG0714 984262002147 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262002148 Walker A motif; other site 984262002149 ATP binding site [chemical binding]; other site 984262002150 Walker B motif; other site 984262002151 arginine finger; other site 984262002152 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 984262002153 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 984262002154 metal ion-dependent adhesion site (MIDAS); other site 984262002155 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 984262002156 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 984262002157 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 984262002158 metal ion-dependent adhesion site (MIDAS); other site 984262002159 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 984262002160 von Willebrand factor type A domain; Region: VWA_2; pfam13519 984262002161 metal ion-dependent adhesion site (MIDAS); other site 984262002162 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 984262002163 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984262002164 TPR motif; other site 984262002165 binding surface 984262002166 Oxygen tolerance; Region: BatD; pfam13584 984262002167 Oxygen tolerance; Region: BatD; pfam13584 984262002168 TPR repeat; Region: TPR_11; pfam13414 984262002169 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 984262002170 binding surface 984262002171 TPR motif; other site 984262002172 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 984262002173 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 984262002175 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 984262002176 Shoulder domain; Region: MVP_shoulder; pfam11978 984262002177 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 984262002178 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262002179 FOG: WD40 repeat [General function prediction only]; Region: COG2319 984262002180 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 984262002181 structural tetrad; other site 984262002182 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 984262002183 structural tetrad; other site 984262002184 FOG: WD40 repeat [General function prediction only]; Region: COG2319 984262002185 Caspase domain; Region: Peptidase_C14; pfam00656 984262002186 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262002187 hypothetical protein; Provisional; Region: PRK12378 984262002188 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 984262002189 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 984262002190 putative NAD(P) binding site [chemical binding]; other site 984262002191 putative substrate binding site [chemical binding]; other site 984262002192 catalytic Zn binding site [ion binding]; other site 984262002193 structural Zn binding site [ion binding]; other site 984262002194 dimer interface [polypeptide binding]; other site 984262002195 Helix-turn-helix domain; Region: HTH_18; pfam12833 984262002196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262002197 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 984262002198 catalytic core [active] 984262002199 O-methyltransferase; Region: Methyltransf_2; pfam00891 984262002200 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262002201 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 984262002202 Walker A motif; other site 984262002203 ATP binding site [chemical binding]; other site 984262002204 Walker B motif; other site 984262002205 arginine finger; other site 984262002206 Radical SAM superfamily; Region: Radical_SAM; pfam04055 984262002207 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 984262002208 FeS/SAM binding site; other site 984262002209 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 984262002210 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262002211 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 984262002212 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262002213 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 984262002214 Walker A motif; other site 984262002215 ATP binding site [chemical binding]; other site 984262002216 Walker B motif; other site 984262002217 arginine finger; other site 984262002218 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 984262002219 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 984262002220 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 984262002221 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 984262002222 metal binding site [ion binding]; metal-binding site 984262002223 dimer interface [polypeptide binding]; other site 984262002224 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 984262002225 active site 984262002226 intersubunit interactions; other site 984262002227 catalytic residue [active] 984262002228 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 984262002229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262002230 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262002231 dimer interface [polypeptide binding]; other site 984262002232 phosphorylation site [posttranslational modification] 984262002233 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262002234 ATP binding site [chemical binding]; other site 984262002235 Mg2+ binding site [ion binding]; other site 984262002236 G-X-G motif; other site 984262002237 Response regulator receiver domain; Region: Response_reg; pfam00072 984262002238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262002239 active site 984262002240 phosphorylation site [posttranslational modification] 984262002241 intermolecular recognition site; other site 984262002242 dimerization interface [polypeptide binding]; other site 984262002243 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 984262002244 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262002245 Walker A motif; other site 984262002246 ATP binding site [chemical binding]; other site 984262002247 Walker B motif; other site 984262002248 arginine finger; other site 984262002249 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 984262002250 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 984262002251 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 984262002252 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262002253 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262002254 ligand binding site [chemical binding]; other site 984262002255 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 984262002256 carboxy-terminal protease; Provisional; Region: PRK11186 984262002257 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 984262002258 protein binding site [polypeptide binding]; other site 984262002259 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 984262002260 Catalytic dyad [active] 984262002261 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 984262002262 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 984262002263 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 984262002264 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 984262002265 IHF - DNA interface [nucleotide binding]; other site 984262002266 IHF dimer interface [polypeptide binding]; other site 984262002267 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 984262002268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262002269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262002270 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 984262002271 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 984262002272 Sulfate transporter family; Region: Sulfate_transp; pfam00916 984262002273 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 984262002274 heme-binding site [chemical binding]; other site 984262002275 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262002276 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 984262002277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262002278 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262002279 AAA ATPase domain; Region: AAA_16; pfam13191 984262002280 FOG: WD40 repeat [General function prediction only]; Region: COG2319 984262002281 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 984262002282 structural tetrad; other site 984262002283 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 984262002284 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 984262002285 tetramer interface [polypeptide binding]; other site 984262002286 TPP-binding site [chemical binding]; other site 984262002287 heterodimer interface [polypeptide binding]; other site 984262002288 phosphorylation loop region [posttranslational modification] 984262002289 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 984262002290 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 984262002291 Uncharacterized conserved protein [Function unknown]; Region: COG4104 984262002292 Phage protein D [General function prediction only]; Region: COG3500 984262002293 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 984262002294 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 984262002295 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 984262002296 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 984262002297 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 984262002298 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 984262002299 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 984262002300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262002301 Integrase core domain; Region: rve; pfam00665 984262002302 Integrase core domain; Region: rve_3; pfam13683 984262002303 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 984262002304 active site 984262002305 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 984262002306 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 984262002307 active site 984262002308 Glyco_18 domain; Region: Glyco_18; smart00636 984262002309 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 984262002310 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262002311 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002312 Domain of unknown function (DUF897); Region: DUF897; pfam05982 984262002313 Nitrogen regulatory protein P-II; Region: P-II; cl00412 984262002314 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262002315 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 984262002316 Walker A motif; other site 984262002317 ATP binding site [chemical binding]; other site 984262002318 Walker B motif; other site 984262002319 arginine finger; other site 984262002320 Peptidase family M41; Region: Peptidase_M41; pfam01434 984262002321 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 984262002322 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 984262002323 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 984262002324 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 984262002325 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 984262002326 GIY-YIG motif/motif A; other site 984262002327 active site 984262002328 catalytic site [active] 984262002329 putative DNA binding site [nucleotide binding]; other site 984262002330 metal binding site [ion binding]; metal-binding site 984262002331 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 984262002332 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 984262002333 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 984262002334 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 984262002335 substrate binding site [chemical binding]; other site 984262002336 ATP binding site [chemical binding]; other site 984262002337 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 984262002338 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 984262002339 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 984262002340 FeS/SAM binding site; other site 984262002341 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 984262002342 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 984262002343 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 984262002344 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262002345 active site 984262002346 catalytic residues [active] 984262002347 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262002348 catalytic residues [active] 984262002349 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 984262002350 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 984262002351 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984262002352 catalytic residue [active] 984262002353 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 984262002354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984262002355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984262002356 Coenzyme A binding pocket [chemical binding]; other site 984262002357 Smr domain; Region: Smr; cl02619 984262002358 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 984262002359 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 984262002360 23S rRNA binding site [nucleotide binding]; other site 984262002361 L21 binding site [polypeptide binding]; other site 984262002362 L13 binding site [polypeptide binding]; other site 984262002363 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 984262002364 AAA domain; Region: AAA_11; pfam13086 984262002365 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 984262002366 ATP binding site [chemical binding]; other site 984262002367 putative Mg++ binding site [ion binding]; other site 984262002368 AAA domain; Region: AAA_12; pfam13087 984262002369 TPR repeat; Region: TPR_11; pfam13414 984262002370 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 984262002371 TPR motif; other site 984262002372 binding surface 984262002373 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262002374 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262002375 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262002376 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262002377 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262002378 ligand binding site [chemical binding]; other site 984262002379 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 984262002380 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 984262002381 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 984262002382 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984262002383 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 984262002384 TPR motif; other site 984262002385 binding surface 984262002386 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 984262002387 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 984262002388 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 984262002389 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 984262002390 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 984262002391 Glycoprotease family; Region: Peptidase_M22; pfam00814 984262002392 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 984262002393 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 984262002394 RNA binding site [nucleotide binding]; other site 984262002395 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 984262002396 RNA binding site [nucleotide binding]; other site 984262002397 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 984262002398 RNA binding site [nucleotide binding]; other site 984262002399 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 984262002400 RNA binding site [nucleotide binding]; other site 984262002401 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 984262002402 RNA binding site [nucleotide binding]; other site 984262002403 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 984262002404 RNA binding site [nucleotide binding]; other site 984262002405 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 984262002406 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262002407 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262002408 ABC transporter; Region: ABC_tran_2; pfam12848 984262002409 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262002410 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cd06263 984262002411 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 984262002412 Interdomain contacts; other site 984262002413 Cytokine receptor motif; other site 984262002414 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 984262002415 Interdomain contacts; other site 984262002416 Cytokine receptor motif; other site 984262002417 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002418 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262002419 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262002420 ligand binding site [chemical binding]; other site 984262002421 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 984262002422 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984262002423 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 984262002424 protein binding site [polypeptide binding]; other site 984262002425 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 984262002426 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 984262002427 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 984262002428 gliding motility-associated protein GldC; Region: GldC; TIGR03515 984262002429 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 984262002430 active sites [active] 984262002431 tetramer interface [polypeptide binding]; other site 984262002432 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 984262002433 active site clefts [active] 984262002434 zinc binding site [ion binding]; other site 984262002435 dimer interface [polypeptide binding]; other site 984262002436 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 984262002437 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 984262002438 dimer interface [polypeptide binding]; other site 984262002439 active site 984262002440 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 984262002441 active site 2 [active] 984262002442 active site 1 [active] 984262002443 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 984262002444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984262002445 NAD(P) binding site [chemical binding]; other site 984262002446 active site 984262002447 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 984262002448 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 984262002449 malonyl-CoA binding site [chemical binding]; other site 984262002450 dimer interface [polypeptide binding]; other site 984262002451 active site 984262002452 product binding site; other site 984262002453 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 984262002454 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 984262002455 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262002456 catalytic residue [active] 984262002457 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 984262002458 trigger factor; Region: tig; TIGR00115 984262002459 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 984262002460 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 984262002461 dimerization interface [polypeptide binding]; other site 984262002462 putative DNA binding site [nucleotide binding]; other site 984262002463 putative Zn2+ binding site [ion binding]; other site 984262002464 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262002465 MULE transposase domain; Region: MULE; pfam10551 984262002466 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 984262002467 putative DNA binding site [nucleotide binding]; other site 984262002468 putative Zn2+ binding site [ion binding]; other site 984262002469 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 984262002470 putative catalytic site [active] 984262002471 putative metal binding site [ion binding]; other site 984262002472 putative phosphate binding site [ion binding]; other site 984262002473 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 984262002474 DHH family; Region: DHH; pfam01368 984262002475 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 984262002476 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 984262002477 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 984262002478 dimer interface [polypeptide binding]; other site 984262002479 active site 984262002480 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 984262002481 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 984262002482 active site 984262002483 catalytic site [active] 984262002484 agmatinase; Region: agmatinase; TIGR01230 984262002485 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 984262002486 putative active site [active] 984262002487 Mn binding site [ion binding]; other site 984262002488 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 984262002489 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 984262002490 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 984262002491 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 984262002492 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 984262002493 homodimer interface [polypeptide binding]; other site 984262002494 substrate-cofactor binding pocket; other site 984262002495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262002496 catalytic residue [active] 984262002497 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 984262002498 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262002499 catalytic residues [active] 984262002500 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 984262002501 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 984262002502 UbiA prenyltransferase family; Region: UbiA; pfam01040 984262002503 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 984262002504 Predicted transcriptional regulator [Transcription]; Region: COG2932 984262002505 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 984262002506 Catalytic site [active] 984262002507 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 984262002508 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 984262002509 active site residue [active] 984262002510 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 984262002511 active site residue [active] 984262002512 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 984262002513 Predicted transporter component [General function prediction only]; Region: COG2391 984262002514 Sulphur transport; Region: Sulf_transp; pfam04143 984262002515 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 984262002516 thiS-thiF/thiG interaction site; other site 984262002517 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 984262002518 ThiC-associated domain; Region: ThiC-associated; pfam13667 984262002519 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 984262002520 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 984262002521 thiamine phosphate binding site [chemical binding]; other site 984262002522 active site 984262002523 pyrophosphate binding site [ion binding]; other site 984262002524 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 984262002525 substrate binding site [chemical binding]; other site 984262002526 dimer interface [polypeptide binding]; other site 984262002527 ATP binding site [chemical binding]; other site 984262002528 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 984262002529 thiamine phosphate binding site [chemical binding]; other site 984262002530 active site 984262002531 pyrophosphate binding site [ion binding]; other site 984262002532 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 984262002533 ThiS interaction site; other site 984262002534 putative active site [active] 984262002535 tetramer interface [polypeptide binding]; other site 984262002536 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 984262002537 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 984262002538 putative substrate translocation pore; other site 984262002539 POT family; Region: PTR2; cl17359 984262002540 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 984262002541 Predicted permease; Region: DUF318; cl17795 984262002542 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 984262002543 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 984262002544 arsenical-resistance protein; Region: acr3; TIGR00832 984262002545 Low molecular weight phosphatase family; Region: LMWPc; cl00105 984262002546 active site 984262002547 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 984262002548 dimerization interface [polypeptide binding]; other site 984262002549 putative DNA binding site [nucleotide binding]; other site 984262002550 putative Zn2+ binding site [ion binding]; other site 984262002551 Tetratricopeptide repeat; Region: TPR_6; pfam13174 984262002552 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 984262002553 active site residue [active] 984262002554 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 984262002555 active site residue [active] 984262002556 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 984262002557 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984262002558 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984262002559 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 984262002560 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 984262002561 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 984262002562 DHH family; Region: DHH; pfam01368 984262002563 DHHA1 domain; Region: DHHA1; pfam02272 984262002564 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262002565 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 984262002566 binding surface 984262002567 TPR motif; other site 984262002568 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262002569 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 984262002570 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 984262002571 S-adenosylmethionine binding site [chemical binding]; other site 984262002572 Uncharacterized protein domain similar to Clostridium thermocellum 2751; Region: Cthe_2751_like; cd11743 984262002573 dimer interface [polypeptide binding]; other site 984262002574 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 984262002575 putative rRNA binding site [nucleotide binding]; other site 984262002576 co-chaperone HscB; Provisional; Region: hscB; PRK05014 984262002577 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 984262002578 HSP70 interaction site [polypeptide binding]; other site 984262002579 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 984262002580 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984262002581 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984262002582 peptide chain release factor 2; Region: prfB; TIGR00020 984262002583 This domain is found in peptide chain release factors; Region: PCRF; smart00937 984262002584 RF-1 domain; Region: RF-1; pfam00472 984262002585 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262002586 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262002587 ligand binding site [chemical binding]; other site 984262002588 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262002589 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262002590 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262002591 ligand binding site [chemical binding]; other site 984262002592 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 984262002593 binding surface 984262002594 TPR motif; other site 984262002595 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 984262002596 binding surface 984262002597 TPR motif; other site 984262002598 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 984262002599 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 984262002600 dimer interface [polypeptide binding]; other site 984262002601 putative anticodon binding site; other site 984262002602 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 984262002603 motif 1; other site 984262002604 active site 984262002605 motif 2; other site 984262002606 motif 3; other site 984262002607 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 984262002608 FAD binding site [chemical binding]; other site 984262002609 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 984262002610 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262002611 active site 984262002612 HIGH motif; other site 984262002613 nucleotide binding site [chemical binding]; other site 984262002614 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262002615 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262002616 active site 984262002617 KMSKS motif; other site 984262002618 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 984262002619 tRNA binding surface [nucleotide binding]; other site 984262002620 anticodon binding site; other site 984262002621 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 984262002622 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 984262002623 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262002624 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 984262002625 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 984262002626 active site 984262002627 metal binding site [ion binding]; metal-binding site 984262002628 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 984262002629 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262002630 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 984262002631 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 984262002632 Subunit I/III interface [polypeptide binding]; other site 984262002633 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 984262002634 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 984262002635 Subunit I/III interface [polypeptide binding]; other site 984262002636 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 984262002637 UbiA prenyltransferase family; Region: UbiA; pfam01040 984262002638 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 984262002639 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 984262002640 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 984262002641 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 984262002642 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 984262002643 Cytochrome c; Region: Cytochrom_C; pfam00034 984262002644 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 984262002645 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 984262002646 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 984262002647 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 984262002648 molybdopterin cofactor binding site; other site 984262002649 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 984262002650 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 984262002651 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 984262002652 Cytochrome c; Region: Cytochrom_C; pfam00034 984262002653 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 984262002654 heme-binding residues [chemical binding]; other site 984262002655 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 984262002656 heme-binding residues [chemical binding]; other site 984262002657 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 984262002658 S-adenosylmethionine binding site [chemical binding]; other site 984262002659 Family of unknown function (DUF490); Region: DUF490; pfam04357 984262002660 UGMP family protein; Validated; Region: PRK09604 984262002661 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 984262002662 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 984262002663 active site 984262002664 Methyltransferase domain; Region: Methyltransf_23; pfam13489 984262002665 Methyltransferase domain; Region: Methyltransf_12; pfam08242 984262002666 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 984262002667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262002668 ATP binding site [chemical binding]; other site 984262002669 Mg2+ binding site [ion binding]; other site 984262002670 G-X-G motif; other site 984262002671 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 984262002672 anchoring element; other site 984262002673 dimer interface [polypeptide binding]; other site 984262002674 ATP binding site [chemical binding]; other site 984262002675 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 984262002676 active site 984262002677 metal binding site [ion binding]; metal-binding site 984262002678 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 984262002679 YHYH protein; Region: YHYH; pfam14240 984262002680 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 984262002681 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 984262002682 catalytic residues [active] 984262002683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984262002684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262002685 active site 984262002686 phosphorylation site [posttranslational modification] 984262002687 intermolecular recognition site; other site 984262002688 dimerization interface [polypeptide binding]; other site 984262002689 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 984262002690 DNA binding site [nucleotide binding] 984262002691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262002692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262002693 dimer interface [polypeptide binding]; other site 984262002694 phosphorylation site [posttranslational modification] 984262002695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262002696 ATP binding site [chemical binding]; other site 984262002697 Mg2+ binding site [ion binding]; other site 984262002698 G-X-G motif; other site 984262002699 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 984262002700 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 984262002701 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984262002702 active site 984262002703 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 984262002704 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 984262002705 putative active site [active] 984262002706 putative metal binding site [ion binding]; other site 984262002707 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 984262002708 S-adenosylmethionine binding site [chemical binding]; other site 984262002709 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 984262002710 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 984262002711 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 984262002712 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 984262002713 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 984262002714 S-adenosylmethionine binding site [chemical binding]; other site 984262002715 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 984262002716 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 984262002717 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 984262002718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262002719 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 984262002720 Bacterial SH3 domain; Region: SH3_3; pfam08239 984262002721 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 984262002722 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 984262002723 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 984262002724 catalytic residues [active] 984262002725 short chain dehydrogenase; Provisional; Region: PRK07454 984262002726 classical (c) SDRs; Region: SDR_c; cd05233 984262002727 NAD(P) binding site [chemical binding]; other site 984262002728 active site 984262002729 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 984262002730 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 984262002731 Peptidase family M23; Region: Peptidase_M23; pfam01551 984262002732 Predicted membrane protein [Function unknown]; Region: COG2855 984262002733 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 984262002734 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 984262002735 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 984262002736 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 984262002737 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 984262002738 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 984262002739 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 984262002740 ATP binding site [chemical binding]; other site 984262002741 putative Mg++ binding site [ion binding]; other site 984262002742 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 984262002743 nucleotide binding region [chemical binding]; other site 984262002744 ATP-binding site [chemical binding]; other site 984262002745 RQC domain; Region: RQC; pfam09382 984262002746 HRDC domain; Region: HRDC; pfam00570 984262002747 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 984262002748 WbqC-like protein family; Region: WbqC; pfam08889 984262002749 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 984262002750 Ligand binding site; other site 984262002751 Putative Catalytic site; other site 984262002752 DXD motif; other site 984262002753 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 984262002754 active site 984262002755 substrate binding site [chemical binding]; other site 984262002756 cosubstrate binding site; other site 984262002757 catalytic site [active] 984262002758 gliding motility associated protien GldN; Region: GldN; TIGR03523 984262002759 gliding motility associated protien GldN; Region: GldN; TIGR03523 984262002760 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 984262002761 GldM N-terminal domain; Region: GldM_N; pfam12081 984262002762 GldM C-terminal domain; Region: GldM_C; pfam12080 984262002763 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 984262002764 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 984262002765 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 984262002766 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 984262002767 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 984262002768 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 984262002769 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984262002770 active site 984262002771 substrate binding site [chemical binding]; other site 984262002772 ATP binding site [chemical binding]; other site 984262002773 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 984262002774 activation loop (A-loop); other site 984262002775 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 984262002776 putative nucleotide binding site [chemical binding]; other site 984262002777 uridine monophosphate binding site [chemical binding]; other site 984262002778 homohexameric interface [polypeptide binding]; other site 984262002779 elongation factor Ts; Provisional; Region: tsf; PRK09377 984262002780 UBA/TS-N domain; Region: UBA; pfam00627 984262002781 Elongation factor TS; Region: EF_TS; pfam00889 984262002782 Elongation factor TS; Region: EF_TS; pfam00889 984262002783 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 984262002784 rRNA interaction site [nucleotide binding]; other site 984262002785 S8 interaction site; other site 984262002786 putative laminin-1 binding site; other site 984262002787 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 984262002788 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 984262002789 23S rRNA interface [nucleotide binding]; other site 984262002790 L3 interface [polypeptide binding]; other site 984262002791 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002792 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984262002793 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 984262002794 FtsX-like permease family; Region: FtsX; pfam02687 984262002795 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262002796 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262002797 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 984262002798 binding surface 984262002799 TPR motif; other site 984262002800 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262002801 CHAT domain; Region: CHAT; pfam12770 984262002802 TPR repeat; Region: TPR_11; pfam13414 984262002803 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 984262002804 TPR motif; other site 984262002805 binding surface 984262002806 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262002807 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 984262002808 binding surface 984262002809 TPR motif; other site 984262002810 Caspase domain; Region: Peptidase_C14; pfam00656 984262002811 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 984262002812 active site 984262002813 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002814 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 984262002815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262002816 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 984262002817 DNA binding residues [nucleotide binding] 984262002818 fumarate hydratase; Reviewed; Region: fumC; PRK00485 984262002819 Class II fumarases; Region: Fumarase_classII; cd01362 984262002820 active site 984262002821 tetramer interface [polypeptide binding]; other site 984262002822 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262002823 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 984262002824 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 984262002825 DNA binding residues [nucleotide binding] 984262002826 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 984262002827 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 984262002828 dimerization interface [polypeptide binding]; other site 984262002829 active site 984262002830 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 984262002831 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 984262002832 Walker A/P-loop; other site 984262002833 ATP binding site [chemical binding]; other site 984262002834 Q-loop/lid; other site 984262002835 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 984262002836 ABC transporter signature motif; other site 984262002837 Walker B; other site 984262002838 D-loop; other site 984262002839 H-loop/switch region; other site 984262002840 DNA helicase, putative; Region: TIGR00376 984262002841 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 984262002842 ATP binding site [chemical binding]; other site 984262002843 AAA domain; Region: AAA_12; pfam13087 984262002844 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 984262002845 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 984262002846 active site 984262002847 catalytic site [active] 984262002848 substrate binding site [chemical binding]; other site 984262002849 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984262002850 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 984262002851 protein binding site [polypeptide binding]; other site 984262002852 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262002853 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 984262002854 Walker A/P-loop; other site 984262002855 ATP binding site [chemical binding]; other site 984262002856 Q-loop/lid; other site 984262002857 ABC transporter signature motif; other site 984262002858 Walker B; other site 984262002859 D-loop; other site 984262002860 H-loop/switch region; other site 984262002861 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 984262002862 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 984262002863 active site 984262002864 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 984262002865 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 984262002866 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 984262002867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262002868 Lamin Tail Domain; Region: LTD; pfam00932 984262002869 Lamin Tail Domain; Region: LTD; pfam00932 984262002870 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002871 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 984262002872 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 984262002873 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262002874 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 984262002875 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 984262002876 DNA binding residues [nucleotide binding] 984262002877 AAA domain; Region: AAA_26; pfam13500 984262002878 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 984262002879 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 984262002880 binding surface 984262002881 TPR motif; other site 984262002882 TPR repeat; Region: TPR_11; pfam13414 984262002883 TPR repeat; Region: TPR_11; pfam13414 984262002884 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 984262002885 binding surface 984262002886 TPR motif; other site 984262002887 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 984262002888 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 984262002889 FeS/SAM binding site; other site 984262002890 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 984262002891 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 984262002892 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262002893 active site 984262002894 HIGH motif; other site 984262002895 nucleotide binding site [chemical binding]; other site 984262002896 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 984262002897 KMSKS motif; other site 984262002898 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 984262002899 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 984262002900 putative ligand binding site [chemical binding]; other site 984262002901 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262002902 MoxR-like ATPases [General function prediction only]; Region: COG0714 984262002903 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262002904 Walker A motif; other site 984262002905 ATP binding site [chemical binding]; other site 984262002906 Walker B motif; other site 984262002907 arginine finger; other site 984262002908 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 984262002909 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 984262002910 active site 984262002911 dimerization interface [polypeptide binding]; other site 984262002912 seryl-tRNA synthetase; Provisional; Region: PRK05431 984262002913 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 984262002914 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 984262002915 dimer interface [polypeptide binding]; other site 984262002916 active site 984262002917 motif 1; other site 984262002918 motif 2; other site 984262002919 motif 3; other site 984262002920 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 984262002921 transcription termination factor Rho; Provisional; Region: PRK12608 984262002922 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 984262002923 RNA binding site [nucleotide binding]; other site 984262002924 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 984262002925 multimer interface [polypeptide binding]; other site 984262002926 Walker A motif; other site 984262002927 ATP binding site [chemical binding]; other site 984262002928 Walker B motif; other site 984262002929 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 984262002930 ribonuclease P; Reviewed; Region: rnpA; PRK01903 984262002931 Haemolytic domain; Region: Haemolytic; pfam01809 984262002932 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262002933 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 984262002934 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262002935 RDD family; Region: RDD; pfam06271 984262002936 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 984262002937 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 984262002938 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 984262002939 ATP binding site [chemical binding]; other site 984262002940 putative Mg++ binding site [ion binding]; other site 984262002941 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 984262002942 nucleotide binding region [chemical binding]; other site 984262002943 ATP-binding site [chemical binding]; other site 984262002944 TRCF domain; Region: TRCF; pfam03461 984262002945 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262002946 MULE transposase domain; Region: MULE; pfam10551 984262002947 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262002948 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262002949 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 984262002950 PhoH-like protein; Region: PhoH; pfam02562 984262002951 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 984262002952 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 984262002953 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 984262002954 active site 984262002955 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 984262002956 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262002957 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 984262002958 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 984262002959 urocanate hydratase; Provisional; Region: PRK05414 984262002960 MG2 domain; Region: A2M_N; pfam01835 984262002961 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 984262002962 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262002963 Alpha-2-macroglobulin family; Region: A2M; pfam00207 984262002964 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 984262002965 surface patch; other site 984262002966 thioester region; other site 984262002967 A-macroglobulin complement component; Region: A2M_comp; pfam07678 984262002968 specificity defining residues; other site 984262002969 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262002970 RmuC family; Region: RmuC; pfam02646 984262002971 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 984262002972 H+ Antiporter protein; Region: 2A0121; TIGR00900 984262002973 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984262002974 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984262002975 active site 984262002976 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 984262002977 active site residue [active] 984262002978 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 984262002979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984262002980 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 984262002981 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 984262002982 active site 984262002983 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 984262002984 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 984262002985 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 984262002986 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 984262002987 acyl-activating enzyme (AAE) consensus motif; other site 984262002988 acyl-activating enzyme (AAE) consensus motif; other site 984262002989 putative AMP binding site [chemical binding]; other site 984262002990 putative active site [active] 984262002991 putative CoA binding site [chemical binding]; other site 984262002992 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 984262002993 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 984262002994 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 984262002995 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 984262002996 Surface antigen; Region: Bac_surface_Ag; pfam01103 984262002997 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 984262002998 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 984262002999 ligand binding site [chemical binding]; other site 984262003000 flexible hinge region; other site 984262003001 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 984262003002 putative switch regulator; other site 984262003003 non-specific DNA interactions [nucleotide binding]; other site 984262003004 DNA binding site [nucleotide binding] 984262003005 putative cAMP binding site [chemical binding]; other site 984262003006 sequence specific DNA binding site [nucleotide binding]; other site 984262003007 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 984262003008 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 984262003009 binding surface 984262003010 TPR motif; other site 984262003011 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262003012 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262003013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262003014 ligand binding site [chemical binding]; other site 984262003015 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 984262003016 RloB-like protein; Region: RloB; pfam13707 984262003017 Predicted ATPases [General function prediction only]; Region: COG1106 984262003018 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 984262003019 Na binding site [ion binding]; other site 984262003020 stage V sporulation protein K; Region: spore_V_K; TIGR02881 984262003021 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262003022 Walker A motif; other site 984262003023 ATP binding site [chemical binding]; other site 984262003024 Walker B motif; other site 984262003025 arginine finger; other site 984262003026 stage V sporulation protein K; Region: spore_V_K; TIGR02881 984262003027 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262003028 Walker A motif; other site 984262003029 ATP binding site [chemical binding]; other site 984262003030 Walker B motif; other site 984262003031 arginine finger; other site 984262003032 putative hydrolase; Provisional; Region: PRK02113 984262003033 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 984262003034 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262003035 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 984262003036 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 984262003037 NodB motif; other site 984262003038 active site 984262003039 catalytic site [active] 984262003040 metal binding site [ion binding]; metal-binding site 984262003041 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 984262003042 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 984262003043 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 984262003044 shikimate binding site; other site 984262003045 NAD(P) binding site [chemical binding]; other site 984262003046 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 984262003047 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 984262003048 NAD binding site [chemical binding]; other site 984262003049 substrate binding site [chemical binding]; other site 984262003050 homodimer interface [polypeptide binding]; other site 984262003051 active site 984262003052 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 984262003053 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 984262003054 NAD binding site [chemical binding]; other site 984262003055 putative substrate binding site 2 [chemical binding]; other site 984262003056 putative substrate binding site 1 [chemical binding]; other site 984262003057 active site 984262003058 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 984262003059 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 984262003060 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 984262003061 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 984262003062 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 984262003063 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 984262003064 P-loop; other site 984262003065 Magnesium ion binding site [ion binding]; other site 984262003066 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 984262003067 Magnesium ion binding site [ion binding]; other site 984262003068 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 984262003069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262003070 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 984262003071 DNA binding residues [nucleotide binding] 984262003072 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 984262003073 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 984262003074 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984262003075 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984262003076 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 984262003077 binding surface 984262003078 TPR motif; other site 984262003079 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003080 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003081 Domain of unknown function (DUF389); Region: DUF389; pfam04087 984262003082 ribosome recycling factor; Reviewed; Region: frr; PRK00083 984262003083 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 984262003084 hinge region; other site 984262003085 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984262003086 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984262003087 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 984262003088 Walker A/P-loop; other site 984262003089 ATP binding site [chemical binding]; other site 984262003090 Q-loop/lid; other site 984262003091 ABC transporter signature motif; other site 984262003092 Walker B; other site 984262003093 D-loop; other site 984262003094 H-loop/switch region; other site 984262003095 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 984262003096 DNA primase, catalytic core; Region: dnaG; TIGR01391 984262003097 CHC2 zinc finger; Region: zf-CHC2; pfam01807 984262003098 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 984262003099 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 984262003100 active site 984262003101 metal binding site [ion binding]; metal-binding site 984262003102 interdomain interaction site; other site 984262003103 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 984262003104 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 984262003105 excinuclease ABC subunit B; Provisional; Region: PRK05298 984262003106 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 984262003107 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 984262003108 ATP-binding site [chemical binding]; other site 984262003109 ATP binding site [chemical binding]; other site 984262003110 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 984262003111 nucleotide binding region [chemical binding]; other site 984262003112 Ultra-violet resistance protein B; Region: UvrB; pfam12344 984262003113 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262003114 Leucine-rich repeats; other site 984262003115 Leucine rich repeat; Region: LRR_8; pfam13855 984262003116 Substrate binding site [chemical binding]; other site 984262003117 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262003118 Leucine-rich repeats; other site 984262003119 Substrate binding site [chemical binding]; other site 984262003120 Leucine rich repeat; Region: LRR_8; pfam13855 984262003121 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262003122 Leucine rich repeat; Region: LRR_8; pfam13855 984262003123 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262003124 Leucine-rich repeats; other site 984262003125 Substrate binding site [chemical binding]; other site 984262003126 Leucine rich repeat; Region: LRR_8; pfam13855 984262003127 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 984262003128 intersubunit interface [polypeptide binding]; other site 984262003129 active site 984262003130 catalytic residue [active] 984262003131 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262003132 ligand binding site [chemical binding]; other site 984262003133 Conserved TM helix; Region: TM_helix; pfam05552 984262003134 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984262003135 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 984262003136 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 984262003137 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262003138 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 984262003139 DNA binding residues [nucleotide binding] 984262003140 quinolinate synthetase; Provisional; Region: PRK09375 984262003141 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 984262003142 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 984262003143 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 984262003144 Domain of unknown function DUF21; Region: DUF21; pfam01595 984262003145 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 984262003146 Transporter associated domain; Region: CorC_HlyC; smart01091 984262003147 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 984262003148 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262003149 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 984262003150 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262003151 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 984262003152 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 984262003153 intersubunit interface [polypeptide binding]; other site 984262003154 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 984262003155 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 984262003156 ABC-ATPase subunit interface; other site 984262003157 dimer interface [polypeptide binding]; other site 984262003158 putative PBP binding regions; other site 984262003159 TM2 domain; Region: TM2; pfam05154 984262003160 Short C-terminal domain; Region: SHOCT; pfam09851 984262003161 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 984262003162 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 984262003163 active site 984262003164 DNA binding site [nucleotide binding] 984262003165 Int/Topo IB signature motif; other site 984262003166 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 984262003167 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 984262003168 DNA binding residues [nucleotide binding] 984262003169 SurA N-terminal domain; Region: SurA_N_3; cl07813 984262003170 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 984262003171 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 984262003172 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 984262003173 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 984262003174 HlyD family secretion protein; Region: HlyD_3; pfam13437 984262003175 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 984262003176 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 984262003177 SecA binding site; other site 984262003178 Preprotein binding site; other site 984262003179 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262003180 active site 984262003181 catalytic residues [active] 984262003182 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262003183 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 984262003184 phosphodiesterase YaeI; Provisional; Region: PRK11340 984262003185 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 984262003186 putative active site [active] 984262003187 putative metal binding site [ion binding]; other site 984262003188 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 984262003189 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 984262003190 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 984262003191 active site 984262003192 substrate binding site [chemical binding]; other site 984262003193 coenzyme B12 binding site [chemical binding]; other site 984262003194 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 984262003195 B12 binding site [chemical binding]; other site 984262003196 cobalt ligand [ion binding]; other site 984262003197 Leucine rich repeat; Region: LRR_8; pfam13855 984262003198 Leucine rich repeat; Region: LRR_8; pfam13855 984262003199 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262003200 Leucine-rich repeats; other site 984262003201 Leucine rich repeat; Region: LRR_8; pfam13855 984262003202 Leucine rich repeat; Region: LRR_8; pfam13855 984262003203 Ion transport protein; Region: Ion_trans; pfam00520 984262003204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262003205 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 984262003206 Walker A motif; other site 984262003207 ATP binding site [chemical binding]; other site 984262003208 Walker B motif; other site 984262003209 arginine finger; other site 984262003210 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262003211 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 984262003212 putative active site [active] 984262003213 dimerization interface [polypeptide binding]; other site 984262003214 putative tRNAtyr binding site [nucleotide binding]; other site 984262003215 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 984262003216 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 984262003217 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 984262003218 alphaNTD - beta interaction site [polypeptide binding]; other site 984262003219 alphaNTD homodimer interface [polypeptide binding]; other site 984262003220 alphaNTD - beta' interaction site [polypeptide binding]; other site 984262003221 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 984262003222 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 984262003223 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 984262003224 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 984262003225 RNA binding surface [nucleotide binding]; other site 984262003226 30S ribosomal protein S11; Validated; Region: PRK05309 984262003227 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 984262003228 30S ribosomal protein S13; Region: bact_S13; TIGR03631 984262003229 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 984262003230 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 984262003231 rRNA binding site [nucleotide binding]; other site 984262003232 predicted 30S ribosome binding site; other site 984262003233 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 984262003234 SecY translocase; Region: SecY; pfam00344 984262003235 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 984262003236 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 984262003237 23S rRNA binding site [nucleotide binding]; other site 984262003238 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 984262003239 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 984262003240 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 984262003241 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 984262003242 5S rRNA interface [nucleotide binding]; other site 984262003243 L27 interface [polypeptide binding]; other site 984262003244 23S rRNA interface [nucleotide binding]; other site 984262003245 L5 interface [polypeptide binding]; other site 984262003246 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 984262003247 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 984262003248 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 984262003249 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 984262003250 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 984262003251 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 984262003252 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 984262003253 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 984262003254 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 984262003255 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 984262003256 RNA binding site [nucleotide binding]; other site 984262003257 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 984262003258 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 984262003259 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 984262003260 putative translocon interaction site; other site 984262003261 signal recognition particle (SRP54) interaction site; other site 984262003262 L23 interface [polypeptide binding]; other site 984262003263 trigger factor interaction site; other site 984262003264 23S rRNA interface [nucleotide binding]; other site 984262003265 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 984262003266 23S rRNA interface [nucleotide binding]; other site 984262003267 5S rRNA interface [nucleotide binding]; other site 984262003268 putative antibiotic binding site [chemical binding]; other site 984262003269 L25 interface [polypeptide binding]; other site 984262003270 L27 interface [polypeptide binding]; other site 984262003271 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 984262003272 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 984262003273 G-X-X-G motif; other site 984262003274 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 984262003275 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 984262003276 putative translocon binding site; other site 984262003277 protein-rRNA interface [nucleotide binding]; other site 984262003278 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 984262003279 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 984262003280 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 984262003281 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 984262003282 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 984262003283 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 984262003284 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 984262003285 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 984262003286 elongation factor G; Reviewed; Region: PRK12739 984262003287 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 984262003288 G1 box; other site 984262003289 putative GEF interaction site [polypeptide binding]; other site 984262003290 GTP/Mg2+ binding site [chemical binding]; other site 984262003291 Switch I region; other site 984262003292 G2 box; other site 984262003293 G3 box; other site 984262003294 Switch II region; other site 984262003295 G4 box; other site 984262003296 G5 box; other site 984262003297 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 984262003298 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 984262003299 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 984262003300 30S ribosomal protein S7; Validated; Region: PRK05302 984262003301 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 984262003302 S17 interaction site [polypeptide binding]; other site 984262003303 S8 interaction site; other site 984262003304 16S rRNA interaction site [nucleotide binding]; other site 984262003305 streptomycin interaction site [chemical binding]; other site 984262003306 23S rRNA interaction site [nucleotide binding]; other site 984262003307 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 984262003308 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 984262003309 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 984262003310 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 984262003311 Beta-lactamase; Region: Beta-lactamase; cl17358 984262003312 HipA N-terminal domain; Region: Couple_hipA; cl11853 984262003313 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 984262003314 sequence-specific DNA binding site [nucleotide binding]; other site 984262003315 salt bridge; other site 984262003316 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 984262003317 TPR motif; other site 984262003318 binding surface 984262003319 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003320 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 984262003321 binding surface 984262003322 TPR motif; other site 984262003323 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262003325 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262003326 dimer interface [polypeptide binding]; other site 984262003327 phosphorylation site [posttranslational modification] 984262003328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262003329 ATP binding site [chemical binding]; other site 984262003330 Mg2+ binding site [ion binding]; other site 984262003331 G-X-G motif; other site 984262003332 Response regulator receiver domain; Region: Response_reg; pfam00072 984262003333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262003334 active site 984262003335 phosphorylation site [posttranslational modification] 984262003336 intermolecular recognition site; other site 984262003337 dimerization interface [polypeptide binding]; other site 984262003338 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; cl17315 984262003339 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 984262003340 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 984262003341 TPR motif; other site 984262003342 binding surface 984262003343 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 984262003344 TPR motif; other site 984262003345 binding surface 984262003346 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 984262003347 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 984262003348 TPP-binding site [chemical binding]; other site 984262003349 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 984262003350 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 984262003351 hydrophobic ligand binding site; other site 984262003352 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 984262003353 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 984262003354 Substrate binding site; other site 984262003355 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 984262003356 CcmE; Region: CcmE; cl00994 984262003357 DNA polymerase III subunit beta; Validated; Region: PRK05643 984262003358 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 984262003359 putative DNA binding surface [nucleotide binding]; other site 984262003360 dimer interface [polypeptide binding]; other site 984262003361 beta-clamp/clamp loader binding surface; other site 984262003362 beta-clamp/translesion DNA polymerase binding surface; other site 984262003363 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 984262003364 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262003365 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262003366 ligand binding site [chemical binding]; other site 984262003367 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 984262003368 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 984262003369 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984262003370 cysteine desulfurase; Provisional; Region: PRK14012 984262003371 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 984262003372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262003373 catalytic residue [active] 984262003374 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 984262003375 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 984262003376 trimerization site [polypeptide binding]; other site 984262003377 active site 984262003378 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 984262003379 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262003380 active site 984262003381 catalytic residues [active] 984262003382 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 984262003383 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 984262003384 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 984262003385 nucleotide binding region [chemical binding]; other site 984262003386 ATP-binding site [chemical binding]; other site 984262003387 SEC-C motif; Region: SEC-C; pfam02810 984262003388 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 984262003389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262003390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262003391 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 984262003392 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 984262003393 NAD(P) binding site [chemical binding]; other site 984262003394 catalytic residues [active] 984262003395 Protein of unknown function (DUF779); Region: DUF779; pfam05610 984262003396 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 984262003397 Bacterial Ig-like domain; Region: Big_5; pfam13205 984262003398 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262003399 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 984262003400 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 984262003401 G1 box; other site 984262003402 putative GEF interaction site [polypeptide binding]; other site 984262003403 GTP/Mg2+ binding site [chemical binding]; other site 984262003404 Switch I region; other site 984262003405 G2 box; other site 984262003406 G3 box; other site 984262003407 Switch II region; other site 984262003408 G4 box; other site 984262003409 G5 box; other site 984262003410 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 984262003411 Lipocalin-like; Region: Lipocalin_3; pfam12702 984262003412 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 984262003413 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 984262003414 B12 binding site [chemical binding]; other site 984262003415 cobalt ligand [ion binding]; other site 984262003416 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 984262003417 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 984262003418 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 984262003419 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262003420 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 984262003421 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 984262003422 NAD binding site [chemical binding]; other site 984262003423 substrate binding site [chemical binding]; other site 984262003424 homodimer interface [polypeptide binding]; other site 984262003425 active site 984262003426 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 984262003427 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262003428 active site 984262003429 HIGH motif; other site 984262003430 nucleotide binding site [chemical binding]; other site 984262003431 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984262003432 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 984262003433 active site 984262003434 KMSKS motif; other site 984262003435 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 984262003436 tRNA binding surface [nucleotide binding]; other site 984262003437 anticodon binding site; other site 984262003438 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 984262003439 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 984262003440 binding surface 984262003441 TPR motif; other site 984262003442 TPR repeat; Region: TPR_11; pfam13414 984262003443 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262003444 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 984262003445 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 984262003446 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 984262003447 trimer interface [polypeptide binding]; other site 984262003448 active site 984262003449 UDP-GlcNAc binding site [chemical binding]; other site 984262003450 lipid binding site [chemical binding]; lipid-binding site 984262003451 NUDIX domain; Region: NUDIX; pfam00293 984262003452 nudix motif; other site 984262003453 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 984262003454 non-specific DNA binding site [nucleotide binding]; other site 984262003455 salt bridge; other site 984262003456 sequence-specific DNA binding site [nucleotide binding]; other site 984262003457 Fic/DOC family; Region: Fic; cl00960 984262003458 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 984262003459 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 984262003460 trmE is a tRNA modification GTPase; Region: trmE; cd04164 984262003461 G1 box; other site 984262003462 GTP/Mg2+ binding site [chemical binding]; other site 984262003463 Switch I region; other site 984262003464 G2 box; other site 984262003465 Switch II region; other site 984262003466 G3 box; other site 984262003467 G4 box; other site 984262003468 G5 box; other site 984262003469 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 984262003470 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262003471 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 984262003472 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 984262003473 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 984262003474 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 984262003475 NAD binding site [chemical binding]; other site 984262003476 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 984262003477 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 984262003478 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 984262003479 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 984262003480 inhibitor-cofactor binding pocket; inhibition site 984262003481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262003482 catalytic residue [active] 984262003483 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262003484 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 984262003485 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 984262003486 Divergent AAA domain; Region: AAA_4; pfam04326 984262003487 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 984262003488 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 984262003489 putative DNA binding site [nucleotide binding]; other site 984262003490 putative Zn2+ binding site [ion binding]; other site 984262003491 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 984262003492 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 984262003493 tetramer interface [polypeptide binding]; other site 984262003494 TPP-binding site [chemical binding]; other site 984262003495 heterodimer interface [polypeptide binding]; other site 984262003496 phosphorylation loop region [posttranslational modification] 984262003497 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 984262003498 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 984262003499 alpha subunit interface [polypeptide binding]; other site 984262003500 TPP binding site [chemical binding]; other site 984262003501 heterodimer interface [polypeptide binding]; other site 984262003502 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984262003503 Proline dehydrogenase; Region: Pro_dh; cl03282 984262003504 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 984262003505 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 984262003506 Walker A/P-loop; other site 984262003507 ATP binding site [chemical binding]; other site 984262003508 Q-loop/lid; other site 984262003509 ABC transporter signature motif; other site 984262003510 Walker B; other site 984262003511 D-loop; other site 984262003512 H-loop/switch region; other site 984262003513 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 984262003514 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 984262003515 hexamer interface [polypeptide binding]; other site 984262003516 ligand binding site [chemical binding]; other site 984262003517 putative active site [active] 984262003518 NAD(P) binding site [chemical binding]; other site 984262003519 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 984262003520 active site 984262003521 metal binding site [ion binding]; metal-binding site 984262003522 homotetramer interface [polypeptide binding]; other site 984262003523 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 984262003524 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 984262003525 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 984262003526 oligomer interface [polypeptide binding]; other site 984262003527 metal binding site [ion binding]; metal-binding site 984262003528 metal binding site [ion binding]; metal-binding site 984262003529 Cl binding site [ion binding]; other site 984262003530 aspartate ring; other site 984262003531 basic sphincter; other site 984262003532 putative hydrophobic gate; other site 984262003533 periplasmic entrance; other site 984262003534 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 984262003535 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984262003536 putative acyl-acceptor binding pocket; other site 984262003537 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 984262003538 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 984262003539 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 984262003540 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 984262003541 S-adenosylmethionine binding site [chemical binding]; other site 984262003542 NlpE N-terminal domain; Region: NlpE; pfam04170 984262003543 META domain; Region: META; pfam03724 984262003544 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 984262003545 EamA-like transporter family; Region: EamA; pfam00892 984262003546 EamA-like transporter family; Region: EamA; pfam00892 984262003547 SurA N-terminal domain; Region: SurA_N; pfam09312 984262003548 PET ((Prickle Espinas Testin) domain is involved in protein-protein interactions; Region: PET; cl05674 984262003549 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 984262003550 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 984262003551 FeoA domain; Region: FeoA; cl00838 984262003552 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 984262003553 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 984262003554 G1 box; other site 984262003555 GTP/Mg2+ binding site [chemical binding]; other site 984262003556 Switch I region; other site 984262003557 G2 box; other site 984262003558 G3 box; other site 984262003559 Switch II region; other site 984262003560 G4 box; other site 984262003561 G5 box; other site 984262003562 Nucleoside recognition; Region: Gate; pfam07670 984262003563 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 984262003564 Nucleoside recognition; Region: Gate; pfam07670 984262003565 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 984262003566 putative dimer interface [polypeptide binding]; other site 984262003567 putative anticodon binding site; other site 984262003568 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 984262003569 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 984262003570 motif 1; other site 984262003571 dimer interface [polypeptide binding]; other site 984262003572 active site 984262003573 motif 2; other site 984262003574 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 984262003575 active site 984262003576 motif 3; other site 984262003577 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 984262003578 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 984262003579 NlpC/P60 family; Region: NLPC_P60; pfam00877 984262003580 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 984262003581 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984262003582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984262003583 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 984262003584 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262003585 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 984262003586 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 984262003587 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262003588 GtrA-like protein; Region: GtrA; pfam04138 984262003589 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 984262003590 active site 984262003591 putative DNA-binding cleft [nucleotide binding]; other site 984262003592 dimer interface [polypeptide binding]; other site 984262003593 GTP-binding protein Der; Reviewed; Region: PRK00093 984262003594 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 984262003595 G1 box; other site 984262003596 GTP/Mg2+ binding site [chemical binding]; other site 984262003597 Switch I region; other site 984262003598 G2 box; other site 984262003599 Switch II region; other site 984262003600 G3 box; other site 984262003601 G4 box; other site 984262003602 G5 box; other site 984262003603 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 984262003604 G1 box; other site 984262003605 GTP/Mg2+ binding site [chemical binding]; other site 984262003606 Switch I region; other site 984262003607 G2 box; other site 984262003608 G3 box; other site 984262003609 Switch II region; other site 984262003610 G4 box; other site 984262003611 G5 box; other site 984262003612 6-phosphofructokinase; Provisional; Region: PRK03202 984262003613 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 984262003614 active site 984262003615 ADP/pyrophosphate binding site [chemical binding]; other site 984262003616 dimerization interface [polypeptide binding]; other site 984262003617 allosteric effector site; other site 984262003618 fructose-1,6-bisphosphate binding site; other site 984262003619 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 984262003620 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 984262003621 Zn binding site [ion binding]; other site 984262003622 Tetratricopeptide repeat; Region: TPR_10; pfam13374 984262003623 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003624 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003625 CHAT domain; Region: CHAT; pfam12770 984262003626 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 984262003627 gamma subunit interface [polypeptide binding]; other site 984262003628 epsilon subunit interface [polypeptide binding]; other site 984262003629 LBP interface [polypeptide binding]; other site 984262003630 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 984262003631 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 984262003632 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 984262003633 alpha subunit interaction interface [polypeptide binding]; other site 984262003634 Walker A motif; other site 984262003635 ATP binding site [chemical binding]; other site 984262003636 Walker B motif; other site 984262003637 inhibitor binding site; inhibition site 984262003638 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 984262003639 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 984262003640 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 984262003641 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 984262003642 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262003643 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 984262003644 Part of AAA domain; Region: AAA_19; pfam13245 984262003645 Family description; Region: UvrD_C_2; pfam13538 984262003646 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 984262003647 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 984262003648 Na binding site [ion binding]; other site 984262003649 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 984262003650 binding surface 984262003651 TPR motif; other site 984262003652 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 984262003653 HEAT repeats; Region: HEAT_2; pfam13646 984262003654 HEAT repeats; Region: HEAT_2; pfam13646 984262003655 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 984262003656 active site 984262003657 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 984262003658 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 984262003659 trimer interface [polypeptide binding]; other site 984262003660 putative metal binding site [ion binding]; other site 984262003661 legume lectins; Region: lectin_L-type; cd01951 984262003662 homotetramer interaction site [polypeptide binding]; other site 984262003663 homodimer interaction site [polypeptide binding]; other site 984262003664 carbohydrate binding site [chemical binding]; other site 984262003665 metal binding site [ion binding]; metal-binding site 984262003666 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262003667 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 984262003668 active site 984262003669 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 984262003670 CoA binding domain; Region: CoA_binding; smart00881 984262003671 CoA-ligase; Region: Ligase_CoA; pfam00549 984262003672 Septum formation initiator; Region: DivIC; pfam04977 984262003673 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 984262003674 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 984262003675 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 984262003676 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 984262003677 motif II; other site 984262003678 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 984262003679 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 984262003680 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 984262003681 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 984262003682 CoA-binding site [chemical binding]; other site 984262003683 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 984262003684 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 984262003685 active site 984262003686 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 984262003687 hexamer interface [polypeptide binding]; other site 984262003688 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 984262003689 Walker A motif; other site 984262003690 ATP binding site [chemical binding]; other site 984262003691 Walker B motif; other site 984262003692 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 984262003693 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 984262003694 P loop; other site 984262003695 Nucleotide binding site [chemical binding]; other site 984262003696 DTAP/Switch II; other site 984262003697 Switch I; other site 984262003698 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 984262003699 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 984262003700 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 984262003701 ATP binding site [chemical binding]; other site 984262003702 substrate interface [chemical binding]; other site 984262003703 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 984262003704 active site residue [active] 984262003705 Ubiquitin-like proteins; Region: UBQ; cl00155 984262003706 charged pocket; other site 984262003707 hydrophobic patch; other site 984262003708 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 984262003709 MPN+ (JAMM) motif; other site 984262003710 Zinc-binding site [ion binding]; other site 984262003711 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 984262003712 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 984262003713 dimer interface [polypeptide binding]; other site 984262003714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262003715 catalytic residue [active] 984262003716 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 984262003717 intersubunit interface [polypeptide binding]; other site 984262003718 active site 984262003719 Zn2+ binding site [ion binding]; other site 984262003720 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 984262003721 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 984262003722 CAAX protease self-immunity; Region: Abi; pfam02517 984262003723 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 984262003724 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 984262003725 inhibitor-cofactor binding pocket; inhibition site 984262003726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262003727 catalytic residue [active] 984262003728 homoserine kinase; Provisional; Region: PRK01212 984262003729 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984262003730 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 984262003731 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 984262003732 Zn binding site [ion binding]; other site 984262003733 Putative FMN-binding domain; Region: FMN_bind_2; cl17803 984262003734 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 984262003735 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984262003736 active site 984262003737 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 984262003738 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 984262003739 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 984262003740 transketolase; Reviewed; Region: PRK05899 984262003741 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 984262003742 TPP-binding site [chemical binding]; other site 984262003743 dimer interface [polypeptide binding]; other site 984262003744 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 984262003745 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 984262003746 PYR/PP interface [polypeptide binding]; other site 984262003747 dimer interface [polypeptide binding]; other site 984262003748 TPP binding site [chemical binding]; other site 984262003749 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984262003750 Peptidase family M48; Region: Peptidase_M48; pfam01435 984262003751 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 984262003752 active site 984262003753 metal binding site [ion binding]; metal-binding site 984262003754 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 984262003755 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 984262003756 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 984262003757 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262003758 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262003759 ligand binding site [chemical binding]; other site 984262003760 Uncharacterized conserved protein [Function unknown]; Region: COG0327 984262003761 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 984262003762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 984262003763 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 984262003764 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 984262003765 Putative zinc ribbon domain; Region: DUF164; pfam02591 984262003766 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 984262003767 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 984262003768 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 984262003769 Preprotein binding site; other site 984262003770 SecA binding site; other site 984262003771 ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell; Region: ADP_ribosyl; cl00283 984262003772 nad+ binding pocket [chemical binding]; other site 984262003773 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 984262003774 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 984262003775 active site 984262003776 metal binding site [ion binding]; metal-binding site 984262003777 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 984262003778 mce related protein; Region: MCE; pfam02470 984262003779 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 984262003780 mce related protein; Region: MCE; pfam02470 984262003781 OstA-like protein; Region: OstA_2; pfam13100 984262003782 OstA-like protein; Region: OstA; cl00844 984262003783 OstA-like protein; Region: OstA; cl00844 984262003784 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 984262003785 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 984262003786 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 984262003787 Protein export membrane protein; Region: SecD_SecF; pfam02355 984262003788 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 984262003789 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 984262003790 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 984262003791 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262003792 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 984262003793 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 984262003794 trimer interface [polypeptide binding]; other site 984262003795 active site 984262003796 substrate binding site [chemical binding]; other site 984262003797 CoA binding site [chemical binding]; other site 984262003798 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 984262003799 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 984262003800 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984262003801 catalytic residue [active] 984262003802 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 984262003803 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984262003804 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984262003805 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984262003806 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 984262003807 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984262003808 Zn2+ binding site [ion binding]; other site 984262003809 Mg2+ binding site [ion binding]; other site 984262003810 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262003811 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 984262003812 putative FMN binding site [chemical binding]; other site 984262003813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262003814 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 984262003815 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 984262003816 putative NAD(P) binding site [chemical binding]; other site 984262003817 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 984262003818 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 984262003819 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 984262003820 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 984262003821 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 984262003822 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 984262003823 classical (c) SDRs; Region: SDR_c; cd05233 984262003824 NAD(P) binding site [chemical binding]; other site 984262003825 active site 984262003826 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 984262003827 DNA polymerase III subunit delta'; Validated; Region: PRK08485 984262003828 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262003829 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 984262003830 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 984262003831 substrate binding pocket [chemical binding]; other site 984262003832 chain length determination region; other site 984262003833 substrate-Mg2+ binding site; other site 984262003834 catalytic residues [active] 984262003835 aspartate-rich region 1; other site 984262003836 active site lid residues [active] 984262003837 aspartate-rich region 2; other site 984262003838 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 984262003839 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 984262003840 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 984262003841 dimer interface [polypeptide binding]; other site 984262003842 motif 1; other site 984262003843 active site 984262003844 motif 2; other site 984262003845 motif 3; other site 984262003846 TraK protein; Region: TraK; pfam06586 984262003847 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 984262003848 binding surface 984262003849 TPR motif; other site 984262003850 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262003851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262003852 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262003853 dimer interface [polypeptide binding]; other site 984262003854 phosphorylation site [posttranslational modification] 984262003855 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262003856 ATP binding site [chemical binding]; other site 984262003857 Mg2+ binding site [ion binding]; other site 984262003858 G-X-G motif; other site 984262003859 Response regulator receiver domain; Region: Response_reg; pfam00072 984262003860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262003861 active site 984262003862 phosphorylation site [posttranslational modification] 984262003863 intermolecular recognition site; other site 984262003864 dimerization interface [polypeptide binding]; other site 984262003865 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 984262003866 DNA binding residues [nucleotide binding] 984262003867 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 984262003868 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 984262003869 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 984262003870 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 984262003871 generic binding surface II; other site 984262003872 ssDNA binding site; other site 984262003873 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 984262003874 ATP binding site [chemical binding]; other site 984262003875 putative Mg++ binding site [ion binding]; other site 984262003876 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 984262003877 nucleotide binding region [chemical binding]; other site 984262003878 ATP-binding site [chemical binding]; other site 984262003879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984262003880 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 984262003881 NAD(P) binding site [chemical binding]; other site 984262003882 active site 984262003883 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 984262003884 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 984262003885 G1 box; other site 984262003886 putative GEF interaction site [polypeptide binding]; other site 984262003887 GTP/Mg2+ binding site [chemical binding]; other site 984262003888 Switch I region; other site 984262003889 G2 box; other site 984262003890 G3 box; other site 984262003891 Switch II region; other site 984262003892 G4 box; other site 984262003893 G5 box; other site 984262003894 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 984262003895 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 984262003896 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 984262003897 Ferritin-like domain; Region: Ferritin; pfam00210 984262003898 ferroxidase diiron center [ion binding]; other site 984262003899 potential frameshift: common BLAST hit: gi|170079449|ref|YP_001736087.1| transposase 984262003900 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262003901 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 984262003902 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 984262003903 heme-binding site [chemical binding]; other site 984262003904 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 984262003905 FAD binding pocket [chemical binding]; other site 984262003906 FAD binding motif [chemical binding]; other site 984262003907 phosphate binding motif [ion binding]; other site 984262003908 beta-alpha-beta structure motif; other site 984262003909 NAD binding pocket [chemical binding]; other site 984262003910 Rrf2 family protein; Region: rrf2_super; TIGR00738 984262003911 Transcriptional regulator; Region: Rrf2; pfam02082 984262003912 Response regulator receiver domain; Region: Response_reg; pfam00072 984262003913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262003914 active site 984262003915 phosphorylation site [posttranslational modification] 984262003916 intermolecular recognition site; other site 984262003917 dimerization interface [polypeptide binding]; other site 984262003918 PglZ domain; Region: PglZ; pfam08665 984262003919 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 984262003920 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 984262003921 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 984262003922 active site 984262003923 RNA/DNA hybrid binding site [nucleotide binding]; other site 984262003924 TraB family; Region: TraB; pfam01963 984262003925 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 984262003926 MutS domain I; Region: MutS_I; pfam01624 984262003927 MutS domain II; Region: MutS_II; pfam05188 984262003928 MutS domain III; Region: MutS_III; pfam05192 984262003929 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 984262003930 Walker A/P-loop; other site 984262003931 ATP binding site [chemical binding]; other site 984262003932 Q-loop/lid; other site 984262003933 ABC transporter signature motif; other site 984262003934 Walker B; other site 984262003935 D-loop; other site 984262003936 H-loop/switch region; other site 984262003937 Fic family protein [Function unknown]; Region: COG3177 984262003938 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 984262003939 Fic/DOC family; Region: Fic; pfam02661 984262003940 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984262003941 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 984262003942 Coenzyme A binding pocket [chemical binding]; other site 984262003943 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 984262003944 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 984262003945 putative active site [active] 984262003946 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 984262003947 Transglycosylase; Region: Transgly; pfam00912 984262003948 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 984262003949 diaminopimelate decarboxylase; Region: lysA; TIGR01048 984262003950 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 984262003951 active site 984262003952 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984262003953 substrate binding site [chemical binding]; other site 984262003954 catalytic residues [active] 984262003955 dimer interface [polypeptide binding]; other site 984262003956 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 984262003957 FOG: CBS domain [General function prediction only]; Region: COG0517 984262003958 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 984262003959 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 984262003960 Glutamine amidotransferase class-I; Region: GATase; pfam00117 984262003961 glutamine binding [chemical binding]; other site 984262003962 catalytic triad [active] 984262003963 Colicin V production protein; Region: Colicin_V; pfam02674 984262003964 Yqey-like protein; Region: YqeY; pfam09424 984262003965 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 984262003966 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262003967 catalytic residues [active] 984262003968 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 984262003969 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262003970 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 984262003971 Protein of unknown function DUF58; Region: DUF58; pfam01882 984262003972 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 984262003973 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984262003974 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984262003975 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 984262003976 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 984262003977 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 984262003978 catalytic residues [active] 984262003979 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 984262003980 DNA-binding interface [nucleotide binding]; DNA binding site 984262003981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262003982 Integrase core domain; Region: rve; pfam00665 984262003983 Integrase core domain; Region: rve_3; pfam13683 984262003984 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 984262003985 starch binding outer membrane protein SusD; Region: SusD; cl17845 984262003986 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 984262003987 4Fe-4S binding domain; Region: Fer4_6; pfam12837 984262003988 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 984262003989 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 984262003990 putative FMN binding site [chemical binding]; other site 984262003991 putative dimer interface [polypeptide binding]; other site 984262003992 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 984262003993 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 984262003994 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262003995 ATP binding site [chemical binding]; other site 984262003996 Mg2+ binding site [ion binding]; other site 984262003997 G-X-G motif; other site 984262003998 Uncharacterized protein family (UPF0164); Region: UPF0164; pfam03687 984262003999 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984262004000 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984262004001 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 984262004002 active site 984262004003 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 984262004004 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262004005 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262004006 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 984262004007 heme-binding site [chemical binding]; other site 984262004008 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262004009 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262004010 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 984262004011 FAD binding domain; Region: FAD_binding_4; pfam01565 984262004012 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 984262004013 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 984262004014 heme-binding site [chemical binding]; other site 984262004015 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262004016 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262004017 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262004018 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; cl00942 984262004019 aromatic arch; other site 984262004020 DCoH dimer interaction site [polypeptide binding]; other site 984262004021 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 984262004022 DCoH tetramer interaction site [polypeptide binding]; other site 984262004023 substrate binding site [chemical binding]; other site 984262004024 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 984262004025 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 984262004026 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 984262004027 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984262004028 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 984262004029 gliding motility-associated protein GldE; Region: GldE; TIGR03520 984262004030 Domain of unknown function DUF21; Region: DUF21; pfam01595 984262004031 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 984262004032 Transporter associated domain; Region: CorC_HlyC; smart01091 984262004033 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 984262004034 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 984262004035 dimer interface [polypeptide binding]; other site 984262004036 ssDNA binding site [nucleotide binding]; other site 984262004037 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984262004038 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 984262004039 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 984262004040 minor groove reading motif; other site 984262004041 helix-hairpin-helix signature motif; other site 984262004042 substrate binding pocket [chemical binding]; other site 984262004043 active site 984262004044 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 984262004045 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 984262004046 DNA binding and oxoG recognition site [nucleotide binding] 984262004047 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 984262004048 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004049 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 984262004050 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 984262004051 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 984262004052 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 984262004053 ApbE family; Region: ApbE; pfam02424 984262004054 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 984262004055 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262004056 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 984262004057 iron-sulfur cluster [ion binding]; other site 984262004058 [2Fe-2S] cluster binding site [ion binding]; other site 984262004059 TPR repeat; Region: TPR_11; pfam13414 984262004060 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 984262004061 binding surface 984262004062 TPR motif; other site 984262004063 TPR repeat; Region: TPR_11; pfam13414 984262004064 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 984262004065 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 984262004066 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 984262004067 HIGH motif; other site 984262004068 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 984262004069 active site 984262004070 KMSKS motif; other site 984262004071 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 984262004072 putative catalytic site [active] 984262004073 putative metal binding site [ion binding]; other site 984262004074 putative phosphate binding site [ion binding]; other site 984262004075 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004076 hypothetical protein; Reviewed; Region: PRK00024 984262004077 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 984262004078 MPN+ (JAMM) motif; other site 984262004079 Zinc-binding site [ion binding]; other site 984262004080 Rhomboid family; Region: Rhomboid; pfam01694 984262004081 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 984262004082 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 984262004083 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 984262004084 CotH protein; Region: CotH; pfam08757 984262004085 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 984262004086 Lamin Tail Domain; Region: LTD; pfam00932 984262004087 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 984262004088 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984262004089 Walker A/P-loop; other site 984262004090 ATP binding site [chemical binding]; other site 984262004091 Q-loop/lid; other site 984262004092 ABC transporter signature motif; other site 984262004093 Walker B; other site 984262004094 D-loop; other site 984262004095 H-loop/switch region; other site 984262004096 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262004097 Serine hydrolase; Region: Ser_hydrolase; cl17834 984262004098 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 984262004099 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 984262004100 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 984262004101 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 984262004102 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 984262004103 NAD binding site [chemical binding]; other site 984262004104 homodimer interface [polypeptide binding]; other site 984262004105 active site 984262004106 substrate binding site [chemical binding]; other site 984262004107 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 984262004108 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 984262004109 binding surface 984262004110 TPR motif; other site 984262004111 DinB superfamily; Region: DinB_2; pfam12867 984262004112 PQQ-like domain; Region: PQQ_2; pfam13360 984262004113 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 984262004114 active site 984262004115 Trp docking motif [polypeptide binding]; other site 984262004116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262004117 ATP binding site [chemical binding]; other site 984262004118 Walker A/P-loop; other site 984262004119 Q-loop/lid; other site 984262004120 ABC transporter signature motif; other site 984262004121 Walker B; other site 984262004122 D-loop; other site 984262004123 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 984262004124 glycyl-tRNA synthetase; Provisional; Region: PRK04173 984262004125 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 984262004126 motif 1; other site 984262004127 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 984262004128 active site 984262004129 motif 2; other site 984262004130 motif 3; other site 984262004131 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 984262004132 anticodon binding site; other site 984262004133 FOG: WD40 repeat [General function prediction only]; Region: COG2319 984262004134 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 984262004135 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984262004136 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984262004137 active site 984262004138 RecX family; Region: RecX; pfam02631 984262004139 Protease prsW family; Region: PrsW-protease; pfam13367 984262004140 Protease prsW family; Region: PrsW-protease; pfam13367 984262004141 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 984262004142 nucleotide binding site/active site [active] 984262004143 HIT family signature motif; other site 984262004144 catalytic residue [active] 984262004145 PSP1 C-terminal conserved region; Region: PSP1; cl00770 984262004146 GldH lipoprotein; Region: GldH_lipo; pfam14109 984262004147 M28 Zn-Peptidases; Region: M28_like_6; cd08656 984262004148 Peptidase family M28; Region: Peptidase_M28; pfam04389 984262004149 metal binding site [ion binding]; metal-binding site 984262004150 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 984262004151 nucleoside/Zn binding site; other site 984262004152 dimer interface [polypeptide binding]; other site 984262004153 catalytic motif [active] 984262004154 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262004155 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 984262004156 active site 984262004157 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004158 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 984262004159 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 984262004160 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 984262004161 active site 984262004162 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 984262004163 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 984262004164 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 984262004165 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 984262004166 tetramerization interface [polypeptide binding]; other site 984262004167 substrate binding pocket [chemical binding]; other site 984262004168 catalytic residues [active] 984262004169 inhibitor binding sites; inhibition site 984262004170 NADP(H) binding site [chemical binding]; other site 984262004171 MutS domain III; Region: MutS_III; pfam05192 984262004172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262004173 Walker A/P-loop; other site 984262004174 ATP binding site [chemical binding]; other site 984262004175 Q-loop/lid; other site 984262004176 ABC transporter signature motif; other site 984262004177 Walker B; other site 984262004178 D-loop; other site 984262004179 H-loop/switch region; other site 984262004180 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 984262004181 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 984262004182 proximal heme binding site [chemical binding]; other site 984262004183 distal heme binding site [chemical binding]; other site 984262004184 putative dimer interface [polypeptide binding]; other site 984262004185 putative Iron-sulfur protein interface [polypeptide binding]; other site 984262004186 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 984262004187 L-aspartate oxidase; Provisional; Region: PRK06175 984262004188 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 984262004189 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 984262004190 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 984262004191 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 984262004192 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 984262004193 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 984262004194 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262004195 catalytic residues [active] 984262004196 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 984262004197 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 984262004198 active site 984262004199 HIGH motif; other site 984262004200 dimer interface [polypeptide binding]; other site 984262004201 KMSKS motif; other site 984262004202 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 984262004203 AhpC/TSA family; Region: AhpC-TSA; pfam00578 984262004204 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 984262004205 purine nucleoside phosphorylase; Provisional; Region: PRK08202 984262004206 peptide chain release factor 1; Validated; Region: prfA; PRK00591 984262004207 This domain is found in peptide chain release factors; Region: PCRF; smart00937 984262004208 RF-1 domain; Region: RF-1; pfam00472 984262004209 Domain of unknown function (DUF368); Region: DUF368; pfam04018 984262004210 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262004211 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 984262004212 catalytic residue [active] 984262004213 TIGR02594 family protein; Region: TIGR02594 984262004214 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 984262004215 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 984262004216 HNH endonuclease; Region: HNH_2; pfam13391 984262004217 active site 984262004218 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 984262004219 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 984262004220 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 984262004221 KpsF/GutQ family protein; Region: kpsF; TIGR00393 984262004222 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 984262004223 putative active site [active] 984262004224 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 984262004225 Leucine rich repeat; Region: LRR_8; pfam13855 984262004226 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262004227 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262004228 Leucine rich repeat; Region: LRR_8; pfam13855 984262004229 Leucine rich repeat; Region: LRR_8; pfam13855 984262004230 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 984262004231 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 984262004232 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 984262004233 Low molecular weight phosphatase family; Region: LMWPc; cd00115 984262004234 active site 984262004235 GH3 auxin-responsive promoter; Region: GH3; pfam03321 984262004236 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 984262004237 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 984262004238 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 984262004239 putative trimer interface [polypeptide binding]; other site 984262004240 putative CoA binding site [chemical binding]; other site 984262004241 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984262004242 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984262004243 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984262004244 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984262004245 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984262004246 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984262004247 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 984262004248 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984262004249 Walker A/P-loop; other site 984262004250 ATP binding site [chemical binding]; other site 984262004251 Q-loop/lid; other site 984262004252 ABC transporter signature motif; other site 984262004253 Walker B; other site 984262004254 D-loop; other site 984262004255 H-loop/switch region; other site 984262004256 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 984262004257 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984262004258 Walker A/P-loop; other site 984262004259 ATP binding site [chemical binding]; other site 984262004260 Q-loop/lid; other site 984262004261 ABC transporter signature motif; other site 984262004262 Walker B; other site 984262004263 D-loop; other site 984262004264 H-loop/switch region; other site 984262004265 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 984262004266 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 984262004267 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 984262004268 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 984262004269 S-adenosylmethionine binding site [chemical binding]; other site 984262004270 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 984262004271 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 984262004272 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 984262004273 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 984262004274 glutaminase active site [active] 984262004275 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 984262004276 dimer interface [polypeptide binding]; other site 984262004277 active site 984262004278 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 984262004279 dimer interface [polypeptide binding]; other site 984262004280 active site 984262004281 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 984262004282 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 984262004283 pantoate--beta-alanine ligase; Region: panC; TIGR00018 984262004284 Pantoate-beta-alanine ligase; Region: PanC; cd00560 984262004285 active site 984262004286 ATP-binding site [chemical binding]; other site 984262004287 pantoate-binding site; other site 984262004288 HXXH motif; other site 984262004289 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; cl00217 984262004290 dimer interface [polypeptide binding]; other site 984262004291 substrate binding site [chemical binding]; other site 984262004292 metal binding sites [ion binding]; metal-binding site 984262004293 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 984262004294 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 984262004295 active site 984262004296 dimer interface [polypeptide binding]; other site 984262004297 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 984262004298 Ligand Binding Site [chemical binding]; other site 984262004299 Molecular Tunnel; other site 984262004300 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 984262004301 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 984262004302 30S subunit binding site; other site 984262004303 elongation factor Tu; Reviewed; Region: PRK12735 984262004304 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 984262004305 G1 box; other site 984262004306 GEF interaction site [polypeptide binding]; other site 984262004307 GTP/Mg2+ binding site [chemical binding]; other site 984262004308 Switch I region; other site 984262004309 G2 box; other site 984262004310 G3 box; other site 984262004311 Switch II region; other site 984262004312 G4 box; other site 984262004313 G5 box; other site 984262004314 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 984262004315 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 984262004316 Antibiotic Binding Site [chemical binding]; other site 984262004317 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 984262004318 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 984262004319 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 984262004320 putative homodimer interface [polypeptide binding]; other site 984262004321 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 984262004322 heterodimer interface [polypeptide binding]; other site 984262004323 homodimer interface [polypeptide binding]; other site 984262004324 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 984262004325 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 984262004326 23S rRNA interface [nucleotide binding]; other site 984262004327 L7/L12 interface [polypeptide binding]; other site 984262004328 putative thiostrepton binding site; other site 984262004329 L25 interface [polypeptide binding]; other site 984262004330 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 984262004331 mRNA/rRNA interface [nucleotide binding]; other site 984262004332 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 984262004333 23S rRNA interface [nucleotide binding]; other site 984262004334 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 984262004335 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 984262004336 core dimer interface [polypeptide binding]; other site 984262004337 peripheral dimer interface [polypeptide binding]; other site 984262004338 L10 interface [polypeptide binding]; other site 984262004339 L11 interface [polypeptide binding]; other site 984262004340 putative EF-Tu interaction site [polypeptide binding]; other site 984262004341 putative EF-G interaction site [polypeptide binding]; other site 984262004342 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 984262004343 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 984262004344 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 984262004345 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 984262004346 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 984262004347 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 984262004348 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 984262004349 RPB3 interaction site [polypeptide binding]; other site 984262004350 RPB1 interaction site [polypeptide binding]; other site 984262004351 RPB11 interaction site [polypeptide binding]; other site 984262004352 RPB10 interaction site [polypeptide binding]; other site 984262004353 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 984262004354 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 984262004355 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 984262004356 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 984262004357 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 984262004358 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 984262004359 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 984262004360 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 984262004361 Peptidase family M23; Region: Peptidase_M23; pfam01551 984262004362 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 984262004363 DNA binding site [nucleotide binding] 984262004364 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 984262004365 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 984262004366 TPP-binding site [chemical binding]; other site 984262004367 tetramer interface [polypeptide binding]; other site 984262004368 heterodimer interface [polypeptide binding]; other site 984262004369 phosphorylation loop region [posttranslational modification] 984262004370 Snf7; Region: Snf7; pfam03357 984262004371 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 984262004372 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 984262004373 PYR/PP interface [polypeptide binding]; other site 984262004374 dimer interface [polypeptide binding]; other site 984262004375 TPP binding site [chemical binding]; other site 984262004376 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984262004377 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 984262004378 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 984262004379 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262004380 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 984262004381 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 984262004382 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262004383 cell surface protein SprA; Region: surface_SprA; TIGR04189 984262004384 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 984262004385 ADP-ribose binding site [chemical binding]; other site 984262004386 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 984262004387 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 984262004388 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 984262004389 EamA-like transporter family; Region: EamA; pfam00892 984262004390 EamA-like transporter family; Region: EamA; pfam00892 984262004391 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 984262004392 catalytic residues [active] 984262004393 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 984262004394 catalytic residues [active] 984262004395 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 984262004396 active site 984262004397 dimerization interface [polypeptide binding]; other site 984262004398 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 984262004399 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 984262004400 homodimer interface [polypeptide binding]; other site 984262004401 substrate-cofactor binding pocket; other site 984262004402 catalytic residue [active] 984262004403 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 984262004404 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 984262004405 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 984262004406 ATP synthase A chain; Region: ATP-synt_A; cl00413 984262004407 ATP synthase subunit C; Region: ATP-synt_C; cl00466 984262004408 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 984262004409 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 984262004410 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 984262004411 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 984262004412 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 984262004413 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 984262004414 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 984262004415 beta subunit interaction interface [polypeptide binding]; other site 984262004416 Walker A motif; other site 984262004417 ATP binding site [chemical binding]; other site 984262004418 Walker B motif; other site 984262004419 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 984262004420 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 984262004421 core domain interface [polypeptide binding]; other site 984262004422 delta subunit interface [polypeptide binding]; other site 984262004423 epsilon subunit interface [polypeptide binding]; other site 984262004424 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 984262004425 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 984262004426 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 984262004427 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 984262004428 Tetramer interface [polypeptide binding]; other site 984262004429 active site 984262004430 FMN-binding site [chemical binding]; other site 984262004431 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 984262004432 HD domain; Region: HD_4; pfam13328 984262004433 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 984262004434 PLD-like domain; Region: PLDc_2; pfam13091 984262004435 putative active site [active] 984262004436 catalytic site [active] 984262004437 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 984262004438 PLD-like domain; Region: PLDc_2; pfam13091 984262004439 putative active site [active] 984262004440 catalytic site [active] 984262004441 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004442 WbqC-like protein family; Region: WbqC; pfam08889 984262004443 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 984262004444 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 984262004445 tRNA; other site 984262004446 putative tRNA binding site [nucleotide binding]; other site 984262004447 putative NADP binding site [chemical binding]; other site 984262004448 porphobilinogen deaminase; Region: hemC; TIGR00212 984262004449 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 984262004450 domain interfaces; other site 984262004451 active site 984262004452 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 984262004453 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 984262004454 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 984262004455 binding surface 984262004456 TPR motif; other site 984262004457 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984262004458 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262004459 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 984262004460 Surface antigen; Region: Bac_surface_Ag; pfam01103 984262004461 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 984262004462 thiamine monophosphate kinase; Provisional; Region: PRK05731 984262004463 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 984262004464 ATP binding site [chemical binding]; other site 984262004465 dimerization interface [polypeptide binding]; other site 984262004466 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 984262004467 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 984262004468 dimer interface [polypeptide binding]; other site 984262004469 motif 1; other site 984262004470 active site 984262004471 motif 2; other site 984262004472 motif 3; other site 984262004473 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 984262004474 anticodon binding site; other site 984262004475 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004476 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 984262004477 active site 984262004478 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 984262004479 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 984262004480 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004481 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984262004482 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 984262004483 S-adenosylmethionine binding site [chemical binding]; other site 984262004484 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 984262004485 Leucine rich repeat; Region: LRR_8; pfam13855 984262004486 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262004487 Leucine-rich repeats; other site 984262004488 Substrate binding site [chemical binding]; other site 984262004489 Leucine rich repeat; Region: LRR_8; pfam13855 984262004490 Leucine rich repeat; Region: LRR_8; pfam13855 984262004491 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 984262004492 tyrosine decarboxylase; Region: PLN02880 984262004493 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 984262004494 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262004495 catalytic residue [active] 984262004496 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 984262004497 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 984262004498 active site 984262004499 Predicted permeases [General function prediction only]; Region: COG0795 984262004500 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 984262004501 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 984262004502 membrane protein insertase; Provisional; Region: PRK01318 984262004503 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 984262004504 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 984262004505 TPR motif; other site 984262004506 binding surface 984262004507 TPR repeat; Region: TPR_11; pfam13414 984262004508 acetolactate synthase; Reviewed; Region: PRK08617 984262004509 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 984262004510 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004511 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004512 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262004513 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 984262004514 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 984262004515 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262004516 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 984262004517 catalytic residues [active] 984262004518 Sporulation related domain; Region: SPOR; pfam05036 984262004519 imidazolonepropionase; Validated; Region: PRK09356 984262004520 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 984262004521 active site 984262004522 YceI-like domain; Region: YceI; cl01001 984262004523 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 984262004524 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 984262004525 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 984262004526 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 984262004527 catalytic loop [active] 984262004528 iron binding site [ion binding]; other site 984262004529 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 984262004530 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262004531 catalytic triad [active] 984262004532 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 984262004533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262004534 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 984262004535 DNA binding residues [nucleotide binding] 984262004536 FecR protein; Region: FecR; pfam04773 984262004537 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 984262004538 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 984262004539 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 984262004540 catalytic triad [active] 984262004541 putative active site [active] 984262004542 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 984262004543 ribosomal protein L33; Region: rpl33; CHL00104 984262004544 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 984262004545 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 984262004546 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 984262004547 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 984262004548 P loop; other site 984262004549 GTP binding site [chemical binding]; other site 984262004550 Sodium Bile acid symporter family; Region: SBF; cl17470 984262004551 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 984262004552 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 984262004553 active site 984262004554 zinc binding site [ion binding]; other site 984262004555 lipoprotein signal peptidase; Provisional; Region: PRK14787 984262004556 lipoprotein signal peptidase; Provisional; Region: PRK14788 984262004557 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 984262004558 hydrophobic ligand binding site; other site 984262004559 Maf-like protein; Region: Maf; pfam02545 984262004560 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 984262004561 active site 984262004562 dimer interface [polypeptide binding]; other site 984262004563 RNA polymerase sigma factor; Provisional; Region: PRK12513 984262004564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262004565 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 984262004566 DNA binding residues [nucleotide binding] 984262004567 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 984262004568 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984262004569 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984262004570 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 984262004571 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 984262004572 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984262004573 MarR family; Region: MarR_2; pfam12802 984262004574 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 984262004575 non-specific DNA binding site [nucleotide binding]; other site 984262004576 salt bridge; other site 984262004577 sequence-specific DNA binding site [nucleotide binding]; other site 984262004578 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 984262004579 Catalytic site [active] 984262004580 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 984262004581 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 984262004582 SCP-2 sterol transfer family; Region: SCP2; pfam02036 984262004583 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 984262004584 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984262004585 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 984262004586 FtsX-like permease family; Region: FtsX; pfam02687 984262004587 hypothetical protein; Provisional; Region: PRK08262 984262004588 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 984262004589 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 984262004590 Virus attachment protein p12 family; Region: P12; pfam12669 984262004591 NADH dehydrogenase subunit G; Validated; Region: PRK09130 984262004592 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 984262004593 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 984262004594 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 984262004595 cofactor binding site; other site 984262004596 DNA binding site [nucleotide binding] 984262004597 substrate interaction site [chemical binding]; other site 984262004598 HpaII restriction endonuclease; Region: RE_HpaII; pfam09561 984262004599 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984262004600 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984262004601 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984262004602 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984262004603 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984262004604 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262004605 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262004606 ligand binding site [chemical binding]; other site 984262004607 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 984262004608 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 984262004609 Mg++ binding site [ion binding]; other site 984262004610 putative catalytic motif [active] 984262004611 substrate binding site [chemical binding]; other site 984262004612 GTP-binding protein LepA; Provisional; Region: PRK05433 984262004613 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 984262004614 G1 box; other site 984262004615 putative GEF interaction site [polypeptide binding]; other site 984262004616 GTP/Mg2+ binding site [chemical binding]; other site 984262004617 Switch I region; other site 984262004618 G2 box; other site 984262004619 G3 box; other site 984262004620 Switch II region; other site 984262004621 G4 box; other site 984262004622 G5 box; other site 984262004623 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 984262004624 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 984262004625 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 984262004626 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 984262004627 active site 984262004628 8-oxo-dGMP binding site [chemical binding]; other site 984262004629 nudix motif; other site 984262004630 metal binding site [ion binding]; metal-binding site 984262004631 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 984262004632 TPR motif; other site 984262004633 binding surface 984262004634 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 984262004635 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 984262004636 Peptidase family M23; Region: Peptidase_M23; pfam01551 984262004637 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 984262004638 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 984262004639 HflX GTPase family; Region: HflX; cd01878 984262004640 G1 box; other site 984262004641 GTP/Mg2+ binding site [chemical binding]; other site 984262004642 Switch I region; other site 984262004643 G2 box; other site 984262004644 G3 box; other site 984262004645 Switch II region; other site 984262004646 G4 box; other site 984262004647 G5 box; other site 984262004648 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262004649 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 984262004650 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 984262004651 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 984262004652 binding surface 984262004653 TPR motif; other site 984262004654 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262004655 CHAT domain; Region: CHAT; pfam12770 984262004656 SET domain; Region: SET; pfam00856 984262004657 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 984262004658 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984262004659 Ribosome-binding factor A; Region: RBFA; pfam02033 984262004660 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 984262004661 SEC-C motif; Region: SEC-C; pfam02810 984262004662 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984262004663 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 984262004664 putative acyl-acceptor binding pocket; other site 984262004665 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 984262004666 active site 984262004667 Citrate synthase (CS), 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. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 984262004668 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 984262004669 oxalacetate binding site [chemical binding]; other site 984262004670 citrylCoA binding site [chemical binding]; other site 984262004671 coenzyme A binding site [chemical binding]; other site 984262004672 catalytic triad [active] 984262004673 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 984262004674 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 984262004675 substrate binding site; other site 984262004676 tetramer interface; other site 984262004677 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 984262004678 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 984262004679 putative substrate translocation pore; other site 984262004680 aldehyde dehydrogenase family 7 member; Region: PLN02315 984262004681 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 984262004682 tetrameric interface [polypeptide binding]; other site 984262004683 NAD binding site [chemical binding]; other site 984262004684 catalytic residues [active] 984262004685 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984262004686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262004687 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 984262004688 DNA binding residues [nucleotide binding] 984262004689 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 984262004690 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 984262004691 homodimer interface [polypeptide binding]; other site 984262004692 metal binding site [ion binding]; metal-binding site 984262004693 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 984262004694 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262004695 catalytic residue [active] 984262004696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262004697 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262004698 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 984262004699 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 984262004700 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 984262004701 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984262004702 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 984262004703 substrate binding site [chemical binding]; other site 984262004704 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 984262004705 oxyanion hole (OAH) forming residues; other site 984262004706 trimer interface [polypeptide binding]; other site 984262004707 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 984262004708 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 984262004709 dimer interface [polypeptide binding]; other site 984262004710 active site 984262004711 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 984262004712 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 984262004713 active site 984262004714 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 984262004715 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 984262004716 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 984262004717 S-adenosylmethionine binding site [chemical binding]; other site 984262004718 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 984262004719 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984262004720 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 984262004721 FeS/SAM binding site; other site 984262004722 TRAM domain; Region: TRAM; pfam01938 984262004723 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262004724 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 984262004725 Walker A motif; other site 984262004726 ATP binding site [chemical binding]; other site 984262004727 Walker B motif; other site 984262004728 arginine finger; other site 984262004729 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 984262004730 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004731 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004732 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 984262004733 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 984262004734 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 984262004735 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 984262004736 motif II; other site 984262004737 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 984262004738 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 984262004739 dimerization interface [polypeptide binding]; other site 984262004740 active site 984262004741 metal binding site [ion binding]; metal-binding site 984262004742 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 984262004743 dsRNA binding site [nucleotide binding]; other site 984262004744 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 984262004745 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 984262004746 dimer interface [polypeptide binding]; other site 984262004747 active site 984262004748 acyl carrier protein; Provisional; Region: acpP; PRK00982 984262004749 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 984262004750 GSCFA family; Region: GSCFA; pfam08885 984262004751 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 984262004752 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 984262004753 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262004754 catalytic residues [active] 984262004755 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984262004756 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 984262004757 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984262004758 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 984262004759 putative PBP binding loops; other site 984262004760 dimer interface [polypeptide binding]; other site 984262004761 ABC-ATPase subunit interface; other site 984262004762 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 984262004763 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 984262004764 substrate binding site [chemical binding]; other site 984262004765 oxyanion hole (OAH) forming residues; other site 984262004766 trimer interface [polypeptide binding]; other site 984262004767 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 984262004768 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984262004769 WYL domain; Region: WYL; pfam13280 984262004770 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 984262004771 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 984262004772 active site residue [active] 984262004773 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984262004774 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 984262004775 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 984262004776 domain interfaces; other site 984262004777 active site 984262004778 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984262004779 active site 984262004780 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262004781 ligand binding site [chemical binding]; other site 984262004782 Uncharacterized integral membrane protein [Function unknown]; Region: COG5594 984262004783 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 984262004784 16S/18S rRNA binding site [nucleotide binding]; other site 984262004785 S13e-L30e interaction site [polypeptide binding]; other site 984262004786 25S rRNA binding site [nucleotide binding]; other site 984262004787 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 984262004788 RNase E interface [polypeptide binding]; other site 984262004789 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 984262004790 trimer interface [polypeptide binding]; other site 984262004791 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 984262004792 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 984262004793 RNase E interface [polypeptide binding]; other site 984262004794 trimer interface [polypeptide binding]; other site 984262004795 active site 984262004796 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 984262004797 putative nucleic acid binding region [nucleotide binding]; other site 984262004798 G-X-X-G motif; other site 984262004799 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 984262004800 RNA binding site [nucleotide binding]; other site 984262004801 domain interface; other site 984262004802 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 984262004803 Peptidase family M1; Region: Peptidase_M1; pfam01433 984262004804 Zn binding site [ion binding]; other site 984262004805 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004806 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 984262004807 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 984262004808 putative dimer interface [polypeptide binding]; other site 984262004809 FOG: PKD repeat [General function prediction only]; Region: COG3291 984262004810 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262004811 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 984262004812 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262004813 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 984262004814 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 984262004815 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 984262004816 alpha subunit interface [polypeptide binding]; other site 984262004817 TPP binding site [chemical binding]; other site 984262004818 heterodimer interface [polypeptide binding]; other site 984262004819 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984262004820 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 984262004821 Flavoprotein; Region: Flavoprotein; pfam02441 984262004822 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 984262004823 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 984262004824 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 984262004825 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 984262004826 dimer interface [polypeptide binding]; other site 984262004827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262004828 catalytic residue [active] 984262004829 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 984262004830 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 984262004831 Bacterial sugar transferase; Region: Bac_transf; pfam02397 984262004832 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 984262004833 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984262004834 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 984262004835 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262004836 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 984262004837 Uncharacterized conserved protein [Function unknown]; Region: COG3743 984262004838 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262004839 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 984262004840 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 984262004841 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 984262004842 homodimer interface [polypeptide binding]; other site 984262004843 oligonucleotide binding site [chemical binding]; other site 984262004844 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 984262004845 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 984262004846 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 984262004847 IHF dimer interface [polypeptide binding]; other site 984262004848 IHF - DNA interface [nucleotide binding]; other site 984262004849 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 984262004850 RNA/DNA hybrid binding site [nucleotide binding]; other site 984262004851 active site 984262004852 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 984262004853 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262004854 Walker A motif; other site 984262004855 ATP binding site [chemical binding]; other site 984262004856 Walker B motif; other site 984262004857 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 984262004858 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 984262004859 Predicted ATPase [General function prediction only]; Region: COG4637 984262004860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262004861 Walker A/P-loop; other site 984262004862 ATP binding site [chemical binding]; other site 984262004863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262004864 ABC transporter signature motif; other site 984262004865 Walker B; other site 984262004866 D-loop; other site 984262004867 H-loop/switch region; other site 984262004868 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 984262004869 putative active site [active] 984262004870 putative catalytic site [active] 984262004871 putative DNA binding site [nucleotide binding]; other site 984262004872 putative phosphate binding site [ion binding]; other site 984262004873 metal binding site A [ion binding]; metal-binding site 984262004874 putative AP binding site [nucleotide binding]; other site 984262004875 putative metal binding site B [ion binding]; other site 984262004876 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 984262004877 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 984262004878 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 984262004879 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 984262004880 metal ion-dependent adhesion site (MIDAS); other site 984262004881 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984262004882 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984262004883 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 984262004884 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 984262004885 Sporulation related domain; Region: SPOR; pfam05036 984262004886 gliding motility associated protien GldN; Region: GldN; TIGR03523 984262004887 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 984262004888 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 984262004889 The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of...; Region: ML; cl00274 984262004890 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 984262004891 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 984262004892 MutS domain III; Region: MutS_III; pfam05192 984262004893 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262004894 Walker A/P-loop; other site 984262004895 ATP binding site [chemical binding]; other site 984262004896 Q-loop/lid; other site 984262004897 ABC transporter signature motif; other site 984262004898 Walker B; other site 984262004899 D-loop; other site 984262004900 H-loop/switch region; other site 984262004901 Smr domain; Region: Smr; pfam01713 984262004902 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 984262004903 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 984262004904 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 984262004905 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 984262004906 homodimer interface [polypeptide binding]; other site 984262004907 NADP binding site [chemical binding]; other site 984262004908 substrate binding site [chemical binding]; other site 984262004909 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 984262004910 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 984262004911 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 984262004912 active site 984262004913 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 984262004914 GTPase Era; Reviewed; Region: era; PRK00089 984262004915 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 984262004916 G1 box; other site 984262004917 GTP/Mg2+ binding site [chemical binding]; other site 984262004918 Switch I region; other site 984262004919 G2 box; other site 984262004920 Switch II region; other site 984262004921 G3 box; other site 984262004922 G4 box; other site 984262004923 G5 box; other site 984262004924 KH domain; Region: KH_2; pfam07650 984262004925 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 984262004926 GAF domain; Region: GAF_3; pfam13492 984262004927 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 984262004928 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 984262004929 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 984262004930 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 984262004931 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 984262004932 FMN binding site [chemical binding]; other site 984262004933 active site 984262004934 substrate binding site [chemical binding]; other site 984262004935 catalytic residue [active] 984262004936 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 984262004937 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 984262004938 active site 984262004939 FMN binding site [chemical binding]; other site 984262004940 substrate binding site [chemical binding]; other site 984262004941 3Fe-4S cluster binding site [ion binding]; other site 984262004942 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 984262004943 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262004944 catalytic residues [active] 984262004945 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984262004946 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 984262004947 FOG: CBS domain [General function prediction only]; Region: COG0517 984262004948 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 984262004949 Dehydroquinase class II; Region: DHquinase_II; pfam01220 984262004950 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 984262004951 trimer interface [polypeptide binding]; other site 984262004952 active site 984262004953 dimer interface [polypeptide binding]; other site 984262004954 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 984262004955 von Willebrand factor; Region: vWF_A; pfam12450 984262004956 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 984262004957 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 984262004958 metal ion-dependent adhesion site (MIDAS); other site 984262004959 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 984262004960 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262004961 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 984262004962 active site 984262004963 Ap6A binding site [chemical binding]; other site 984262004964 nudix motif; other site 984262004965 metal binding site [ion binding]; metal-binding site 984262004966 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 984262004967 catalytic center binding site [active] 984262004968 ATP binding site [chemical binding]; other site 984262004969 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 984262004970 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 984262004971 Substrate-binding site [chemical binding]; other site 984262004972 Substrate specificity [chemical binding]; other site 984262004973 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 984262004974 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 984262004975 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 984262004976 substrate binding pocket [chemical binding]; other site 984262004977 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 984262004978 B12 binding site [chemical binding]; other site 984262004979 cobalt ligand [ion binding]; other site 984262004980 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 984262004981 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 984262004982 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 984262004983 NAD(P) binding site [chemical binding]; other site 984262004984 catalytic residues [active] 984262004985 elongation factor P; Validated; Region: PRK00529 984262004986 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 984262004987 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 984262004988 RNA binding site [nucleotide binding]; other site 984262004989 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 984262004990 RNA binding site [nucleotide binding]; other site 984262004991 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 984262004992 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 984262004993 carboxyltransferase (CT) interaction site; other site 984262004994 biotinylation site [posttranslational modification]; other site 984262004995 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 984262004996 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984262004997 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984262004998 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 984262004999 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005000 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262005001 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 984262005002 TPR motif; other site 984262005003 binding surface 984262005004 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 984262005005 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262005006 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262005007 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262005008 ligand binding site [chemical binding]; other site 984262005009 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 984262005010 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 984262005011 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 984262005012 active site 984262005013 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005014 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 984262005015 dimerization interface [polypeptide binding]; other site 984262005016 putative Zn2+ binding site [ion binding]; other site 984262005017 putative DNA binding site [nucleotide binding]; other site 984262005018 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 984262005019 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 984262005020 S-adenosylmethionine binding site [chemical binding]; other site 984262005021 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262005022 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262005023 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 984262005024 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 984262005025 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984262005026 HlyD family secretion protein; Region: HlyD_3; pfam13437 984262005027 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262005028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 984262005029 Protein export membrane protein; Region: SecD_SecF; cl14618 984262005030 membrane ATPase/protein kinase; Provisional; Region: PRK09435 984262005031 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 984262005032 Walker A; other site 984262005033 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 984262005034 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 984262005035 E3 interaction surface; other site 984262005036 lipoyl attachment site [posttranslational modification]; other site 984262005037 e3 binding domain; Region: E3_binding; pfam02817 984262005038 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984262005039 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 984262005040 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 984262005041 RuvA N terminal domain; Region: RuvA_N; pfam01330 984262005042 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 984262005043 cell surface protein SprA; Region: surface_SprA; TIGR04189 984262005044 Motility related/secretion protein; Region: SprA_N; pfam14349 984262005045 Motility related/secretion protein; Region: SprA_N; pfam14349 984262005046 Motility related/secretion protein; Region: SprA_N; pfam14349 984262005047 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 984262005048 Protein of unknown function (DUF721); Region: DUF721; pfam05258 984262005049 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 984262005050 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 984262005051 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005052 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005053 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005054 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262005055 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 984262005056 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 984262005057 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 984262005058 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 984262005059 dimer interface [polypeptide binding]; other site 984262005060 decamer (pentamer of dimers) interface [polypeptide binding]; other site 984262005061 catalytic triad [active] 984262005062 peroxidatic and resolving cysteines [active] 984262005063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984262005064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984262005065 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 984262005066 dimerization interface [polypeptide binding]; other site 984262005067 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 984262005068 Surface antigen; Region: Bac_surface_Ag; pfam01103 984262005069 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 984262005070 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984262005071 Protein of unknown function (DUF819); Region: DUF819; cl02317 984262005072 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005073 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005074 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005075 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005076 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005077 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005078 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005079 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005080 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005081 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005082 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005083 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262005084 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 984262005085 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 984262005086 TPR motif; other site 984262005087 binding surface 984262005088 TPR repeat; Region: TPR_11; pfam13414 984262005089 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 984262005090 TPR motif; other site 984262005091 binding surface 984262005092 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262005093 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262005094 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 984262005095 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984262005096 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 984262005097 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 984262005098 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 984262005099 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 984262005100 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984262005101 catalytic residue [active] 984262005102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262005103 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262005104 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 984262005105 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 984262005106 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 984262005107 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed; Region: PRK04169 984262005108 PcrB family; Region: PcrB; pfam01884 984262005109 phosphate binding site [ion binding]; other site 984262005110 GTPase RsgA; Reviewed; Region: PRK00098 984262005111 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 984262005112 RNA binding site [nucleotide binding]; other site 984262005113 homodimer interface [polypeptide binding]; other site 984262005114 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 984262005115 GTPase/Zn-binding domain interface [polypeptide binding]; other site 984262005116 GTP/Mg2+ binding site [chemical binding]; other site 984262005117 G4 box; other site 984262005118 G5 box; other site 984262005119 G1 box; other site 984262005120 Switch I region; other site 984262005121 G2 box; other site 984262005122 G3 box; other site 984262005123 Switch II region; other site 984262005124 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 984262005125 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 984262005126 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984262005127 catalytic residue [active] 984262005128 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 984262005129 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 984262005130 replicative DNA helicase; Region: DnaB; TIGR00665 984262005131 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 984262005132 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 984262005133 Walker A motif; other site 984262005134 ATP binding site [chemical binding]; other site 984262005135 Walker B motif; other site 984262005136 DNA binding loops [nucleotide binding] 984262005137 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 984262005138 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 984262005139 TPR motif; other site 984262005140 binding surface 984262005141 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262005142 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262005143 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262005144 ligand binding site [chemical binding]; other site 984262005145 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 984262005146 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 984262005147 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 984262005148 active site 984262005149 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 984262005150 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 984262005151 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 984262005152 SLBB domain; Region: SLBB; pfam10531 984262005153 SLBB domain; Region: SLBB; pfam10531 984262005154 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 984262005155 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262005156 PGAP1-like protein; Region: PGAP1; pfam07819 984262005157 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262005158 MULE transposase domain; Region: MULE; pfam10551 984262005159 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984262005160 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 984262005161 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 984262005162 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 984262005163 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 984262005164 RNA binding site [nucleotide binding]; other site 984262005165 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 984262005166 Interdomain contacts; other site 984262005167 Cytokine receptor motif; other site 984262005168 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005169 Right handed beta helix region; Region: Beta_helix; pfam13229 984262005170 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262005171 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262005172 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 984262005173 N-terminal plug; other site 984262005174 ligand-binding site [chemical binding]; other site 984262005175 tellurium resistance terB-like protein; Region: terB_like; cd07177 984262005176 metal binding site [ion binding]; metal-binding site 984262005177 prolyl-tRNA synthetase; Provisional; Region: PRK08661 984262005178 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_arch_euk; cd00778 984262005179 dimer interface [polypeptide binding]; other site 984262005180 motif 1; other site 984262005181 active site 984262005182 motif 2; other site 984262005183 motif 3; other site 984262005184 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 984262005185 anticodon binding site; other site 984262005186 zinc-binding site [ion binding]; other site 984262005187 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262005188 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 984262005189 active site 984262005190 catalytic triad [active] 984262005191 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 984262005192 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 984262005193 dimer interface [polypeptide binding]; other site 984262005194 active site 984262005195 CoA binding pocket [chemical binding]; other site 984262005196 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 984262005197 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 984262005198 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 984262005199 catalytic residues [active] 984262005200 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262005201 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984262005202 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 984262005203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984262005204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984262005205 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 984262005206 Clp amino terminal domain; Region: Clp_N; pfam02861 984262005207 Clp amino terminal domain; Region: Clp_N; pfam02861 984262005208 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262005209 Walker A motif; other site 984262005210 ATP binding site [chemical binding]; other site 984262005211 Walker B motif; other site 984262005212 arginine finger; other site 984262005213 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262005214 Walker A motif; other site 984262005215 ATP binding site [chemical binding]; other site 984262005216 Walker B motif; other site 984262005217 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 984262005218 Cytochrome c; Region: Cytochrom_C; pfam00034 984262005219 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262005220 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 984262005221 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262005222 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 984262005223 Zn binding site [ion binding]; other site 984262005224 mevalonate kinase; Region: mevalon_kin; TIGR00549 984262005225 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984262005226 isocitrate dehydrogenase; Validated; Region: PRK07362 984262005227 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 984262005228 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 984262005229 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 984262005230 Ligand binding site; other site 984262005231 Putative Catalytic site; other site 984262005232 DXD motif; other site 984262005233 Methyltransferase domain; Region: Methyltransf_23; pfam13489 984262005234 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 984262005235 S-adenosylmethionine binding site [chemical binding]; other site 984262005236 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 984262005237 MORN repeat; Region: MORN; cl14787 984262005238 Caspase domain; Region: Peptidase_C14; pfam00656 984262005239 substrate pocket [chemical binding]; other site 984262005240 active site 984262005241 dimer interface [polypeptide binding]; other site 984262005242 proteolytic cleavage site; other site 984262005243 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 984262005244 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 984262005245 metal-binding site [ion binding] 984262005246 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984262005247 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984262005248 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 984262005249 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 984262005250 putative tRNA-binding site [nucleotide binding]; other site 984262005251 B3/4 domain; Region: B3_4; pfam03483 984262005252 tRNA synthetase B5 domain; Region: B5; pfam03484 984262005253 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 984262005254 dimer interface [polypeptide binding]; other site 984262005255 motif 1; other site 984262005256 motif 3; other site 984262005257 motif 2; other site 984262005258 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 984262005259 Cell division protein ZapA; Region: ZapA; pfam05164 984262005260 phosphodiesterase; Provisional; Region: PRK12704 984262005261 KH domain; Region: KH_1; pfam00013 984262005262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984262005263 Zn2+ binding site [ion binding]; other site 984262005264 Mg2+ binding site [ion binding]; other site 984262005265 Lamin Tail Domain; Region: LTD; pfam00932 984262005266 Lamin Tail Domain; Region: LTD; pfam00932 984262005267 Bacterial Ig-like domain; Region: Big_5; pfam13205 984262005268 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 984262005269 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 984262005270 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 984262005271 motif 1; other site 984262005272 active site 984262005273 motif 2; other site 984262005274 motif 3; other site 984262005275 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 984262005276 DHHA1 domain; Region: DHHA1; pfam02272 984262005277 IncA protein; Region: IncA; pfam04156 984262005278 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 984262005279 Peptidase family M23; Region: Peptidase_M23; pfam01551 984262005280 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 984262005281 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 984262005282 DNA binding residues [nucleotide binding] 984262005283 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262005284 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262005285 Leucine rich repeat; Region: LRR_8; pfam13855 984262005286 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 984262005287 Peptidase family M1; Region: Peptidase_M1; pfam01433 984262005288 Zn binding site [ion binding]; other site 984262005289 HEAT repeats; Region: HEAT_2; pfam13646 984262005290 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 984262005291 active site 984262005292 catalytic motif [active] 984262005293 Zn binding site [ion binding]; other site 984262005294 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 984262005295 Ligand Binding Site [chemical binding]; other site 984262005296 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 984262005297 Ligand Binding Site [chemical binding]; other site 984262005298 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 984262005299 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 984262005300 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 984262005301 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262005302 catalytic residues [active] 984262005303 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 984262005304 carboxyltransferase (CT) interaction site; other site 984262005305 biotinylation site [posttranslational modification]; other site 984262005306 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 984262005307 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 984262005308 translation initiation factor IF-3; Region: infC; TIGR00168 984262005309 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 984262005310 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 984262005311 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 984262005312 S-adenosylmethionine binding site [chemical binding]; other site 984262005313 PBP superfamily domain; Region: PBP_like_2; cl17296 984262005314 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 984262005315 AMP-binding enzyme; Region: AMP-binding; pfam00501 984262005316 acyl-activating enzyme (AAE) consensus motif; other site 984262005317 active site 984262005318 AMP binding site [chemical binding]; other site 984262005319 CoA binding site [chemical binding]; other site 984262005320 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 984262005321 homopentamer interface [polypeptide binding]; other site 984262005322 active site 984262005323 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 984262005324 peptidase T; Region: peptidase-T; TIGR01882 984262005325 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 984262005326 metal binding site [ion binding]; metal-binding site 984262005327 dimer interface [polypeptide binding]; other site 984262005328 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984262005329 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005330 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 984262005331 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262005332 binding surface 984262005333 TPR motif; other site 984262005334 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262005335 CHAT domain; Region: CHAT; pfam12770 984262005336 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 984262005337 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 984262005338 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 984262005339 active site 984262005340 hydrophilic channel; other site 984262005341 dimerization interface [polypeptide binding]; other site 984262005342 catalytic residues [active] 984262005343 active site lid [active] 984262005344 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 984262005345 dimer interface [polypeptide binding]; other site 984262005346 FMN binding site [chemical binding]; other site 984262005347 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 984262005348 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 984262005349 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 984262005350 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 984262005351 TrkA-N domain; Region: TrkA_N; pfam02254 984262005352 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 984262005353 active site 984262005354 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 984262005355 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 984262005356 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 984262005357 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 984262005358 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 984262005359 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984262005360 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 984262005361 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 984262005362 FeS/SAM binding site; other site 984262005363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262005364 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 984262005365 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 984262005366 Integral membrane protein DUF95; Region: DUF95; pfam01944 984262005367 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 984262005368 MoxR-like ATPases [General function prediction only]; Region: COG0714 984262005369 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262005370 Walker A motif; other site 984262005371 ATP binding site [chemical binding]; other site 984262005372 Walker B motif; other site 984262005373 arginine finger; other site 984262005374 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 984262005375 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 984262005376 active site 984262005377 ferrochelatase; Provisional; Region: PRK12435 984262005378 Leucine rich repeat; Region: LRR_8; pfam13855 984262005379 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262005380 Leucine rich repeat; Region: LRR_8; pfam13855 984262005381 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984262005382 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984262005383 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 984262005384 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 984262005385 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 984262005386 SmpB-tmRNA interface; other site 984262005387 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 984262005388 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 984262005389 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 984262005390 FeoA domain; Region: FeoA; pfam04023 984262005391 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 984262005392 putative deacylase active site [active] 984262005393 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 984262005394 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262005395 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262005396 ligand binding site [chemical binding]; other site 984262005397 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 984262005398 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 984262005399 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 984262005400 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 984262005401 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984262005402 Ion channel; Region: Ion_trans_2; pfam07885 984262005403 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 984262005404 TrkA-N domain; Region: TrkA_N; pfam02254 984262005405 TrkA-C domain; Region: TrkA_C; pfam02080 984262005406 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 984262005407 classical (c) SDRs; Region: SDR_c; cd05233 984262005408 NAD(P) binding site [chemical binding]; other site 984262005409 active site 984262005410 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 984262005411 binding surface 984262005412 TPR motif; other site 984262005413 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984262005414 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262005415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262005416 Walker A/P-loop; other site 984262005417 ATP binding site [chemical binding]; other site 984262005418 Q-loop/lid; other site 984262005419 AAA domain; Region: AAA_21; pfam13304 984262005420 TIGR02646 family protein; Region: TIGR02646 984262005421 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 984262005422 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 984262005423 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262005424 ATP binding site [chemical binding]; other site 984262005425 Mg2+ binding site [ion binding]; other site 984262005426 G-X-G motif; other site 984262005427 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 984262005428 ATP binding site [chemical binding]; other site 984262005429 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 984262005430 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 984262005431 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 984262005432 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 984262005433 PA/protease or protease-like domain interface [polypeptide binding]; other site 984262005434 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 984262005435 Peptidase family M28; Region: Peptidase_M28; pfam04389 984262005436 metal binding site [ion binding]; metal-binding site 984262005437 Predicted methyltransferases [General function prediction only]; Region: COG0313 984262005438 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 984262005439 putative SAM binding site [chemical binding]; other site 984262005440 homodimer interface [polypeptide binding]; other site 984262005441 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 984262005442 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 984262005443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262005444 homodimer interface [polypeptide binding]; other site 984262005445 catalytic residue [active] 984262005446 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 984262005447 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 984262005448 active site lid residues [active] 984262005449 substrate binding pocket [chemical binding]; other site 984262005450 catalytic residues [active] 984262005451 substrate-Mg2+ binding site; other site 984262005452 aspartate-rich region 1; other site 984262005453 aspartate-rich region 2; other site 984262005454 phytoene desaturase; Region: crtI_fam; TIGR02734 984262005455 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984262005456 Di-sulfide bridge nucleocytoplasmic transport domain; Region: Brr6_like_C_C; cl12377 984262005457 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 984262005458 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 984262005459 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 984262005460 S-adenosylmethionine binding site [chemical binding]; other site 984262005461 Cytochrome C assembly protein; Region: Cytochrom_C_asm; pfam01578 984262005462 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 984262005463 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 984262005464 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 984262005465 NAD(P) binding site [chemical binding]; other site 984262005466 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 984262005467 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 984262005468 putative DNA binding site [nucleotide binding]; other site 984262005469 putative Zn2+ binding site [ion binding]; other site 984262005470 AsnC family; Region: AsnC_trans_reg; pfam01037 984262005471 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 984262005472 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 984262005473 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 984262005474 catalytic residues [active] 984262005475 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 984262005476 catalytic residues [active] 984262005477 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 984262005478 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262005479 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 984262005480 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 984262005481 Sulfate transporter family; Region: Sulfate_transp; pfam00916 984262005482 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 984262005483 DEAD-like helicases superfamily; Region: DEXDc; smart00487 984262005484 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 984262005485 ATP binding site [chemical binding]; other site 984262005486 Mg++ binding site [ion binding]; other site 984262005487 motif III; other site 984262005488 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 984262005489 nucleotide binding region [chemical binding]; other site 984262005490 ATP-binding site [chemical binding]; other site 984262005491 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 984262005492 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 984262005493 trimer interface [polypeptide binding]; other site 984262005494 active site 984262005495 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 984262005496 active site 984262005497 metal binding site [ion binding]; metal-binding site 984262005498 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 984262005499 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984262005500 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984262005501 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 984262005502 active site 984262005503 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984262005504 dimer interface [polypeptide binding]; other site 984262005505 substrate binding site [chemical binding]; other site 984262005506 catalytic residues [active] 984262005507 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 984262005508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984262005509 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984262005510 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 984262005511 dihydropteroate synthase; Region: DHPS; TIGR01496 984262005512 substrate binding pocket [chemical binding]; other site 984262005513 dimer interface [polypeptide binding]; other site 984262005514 inhibitor binding site; inhibition site 984262005515 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 984262005516 active site 984262005517 dinuclear metal binding site [ion binding]; other site 984262005518 dimerization interface [polypeptide binding]; other site 984262005519 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 984262005520 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262005521 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 984262005522 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 984262005523 putative catalytic site [active] 984262005524 putative metal binding site [ion binding]; other site 984262005525 putative phosphate binding site [ion binding]; other site 984262005526 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262005527 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 984262005528 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 984262005529 lipoyl attachment site [posttranslational modification]; other site 984262005530 VanZ like family; Region: VanZ; cl01971 984262005531 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 984262005532 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 984262005533 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 984262005534 acyl-activating enzyme (AAE) consensus motif; other site 984262005535 putative AMP binding site [chemical binding]; other site 984262005536 putative active site [active] 984262005537 putative CoA binding site [chemical binding]; other site 984262005538 GTP-binding protein YchF; Reviewed; Region: PRK09601 984262005539 YchF GTPase; Region: YchF; cd01900 984262005540 G1 box; other site 984262005541 GTP/Mg2+ binding site [chemical binding]; other site 984262005542 Switch I region; other site 984262005543 G2 box; other site 984262005544 Switch II region; other site 984262005545 G3 box; other site 984262005546 G4 box; other site 984262005547 G5 box; other site 984262005548 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 984262005549 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 984262005550 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 984262005551 dimer interface [polypeptide binding]; other site 984262005552 active site 984262005553 CoA binding pocket [chemical binding]; other site 984262005554 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984262005555 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984262005556 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984262005557 active site 984262005558 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 984262005559 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262005560 active site 984262005561 catalytic residues [active] 984262005562 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984262005563 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262005564 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 984262005565 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 984262005566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262005567 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 984262005568 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 984262005569 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 984262005570 active site 984262005571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262005572 AAA domain; Region: AAA_21; pfam13304 984262005573 Walker A/P-loop; other site 984262005574 ATP binding site [chemical binding]; other site 984262005575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262005576 Q-loop/lid; other site 984262005577 ABC transporter signature motif; other site 984262005578 Walker B; other site 984262005579 D-loop; other site 984262005580 H-loop/switch region; other site 984262005581 lipoyl synthase; Provisional; Region: PRK05481 984262005582 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 984262005583 FeS/SAM binding site; other site 984262005584 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 984262005585 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 984262005586 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 984262005587 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 984262005588 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262005589 CHAT domain; Region: CHAT; pfam12770 984262005590 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 984262005591 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984262005592 active site 984262005593 catalytic residues [active] 984262005594 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005595 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 984262005596 triosephosphate isomerase; Provisional; Region: PRK14565 984262005597 substrate binding site [chemical binding]; other site 984262005598 dimer interface [polypeptide binding]; other site 984262005599 catalytic triad [active] 984262005600 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 984262005601 putative active site [active] 984262005602 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 984262005603 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 984262005604 active site 984262005605 catalytic triad [active] 984262005606 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 984262005608 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 984262005609 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262005610 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262005611 ligand binding site [chemical binding]; other site 984262005612 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 984262005613 Cytochrome c; Region: Cytochrom_C; pfam00034 984262005614 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 984262005615 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 984262005616 Cu(I) binding site [ion binding]; other site 984262005617 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 984262005618 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 984262005619 active site 984262005620 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984262005621 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984262005622 active site 984262005623 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 984262005624 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 984262005625 FeS/SAM binding site; other site 984262005626 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 984262005627 DinB superfamily; Region: DinB_2; pfam12867 984262005628 Leucine rich repeat; Region: LRR_8; pfam13855 984262005629 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262005630 MULE transposase domain; Region: MULE; pfam10551 984262005631 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 984262005632 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 984262005633 homodimer interface [polypeptide binding]; other site 984262005634 substrate-cofactor binding pocket; other site 984262005635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262005636 catalytic residue [active] 984262005637 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 984262005638 Uncharacterized conserved protein [Function unknown]; Region: COG4198 984262005639 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 984262005640 active site 984262005641 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 984262005642 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 984262005643 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 984262005644 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 984262005645 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984262005646 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 984262005647 putative active site; other site 984262005648 putative metal binding residues [ion binding]; other site 984262005649 signature motif; other site 984262005650 putative triphosphate binding site [ion binding]; other site 984262005651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262005652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262005653 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 984262005654 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 984262005655 metal ion-dependent adhesion site (MIDAS); other site 984262005656 hypothetical protein; Provisional; Region: PRK00967 984262005657 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 984262005658 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 984262005659 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 984262005660 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 984262005661 RIP metalloprotease RseP; Region: TIGR00054 984262005662 active site 984262005663 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 984262005664 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 984262005665 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 984262005666 putative substrate binding region [chemical binding]; other site 984262005667 MG2 domain; Region: A2M_N; pfam01835 984262005668 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 984262005669 Alpha-2-macroglobulin family; Region: A2M; pfam00207 984262005670 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 984262005671 surface patch; other site 984262005672 thioester region; other site 984262005673 A-macroglobulin complement component; Region: A2M_comp; pfam07678 984262005674 specificity defining residues; other site 984262005675 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 984262005676 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 984262005677 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 984262005678 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 984262005679 active site 984262005680 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 984262005681 active site 984262005682 dimer interface [polypeptide binding]; other site 984262005683 metal binding site [ion binding]; metal-binding site 984262005684 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 984262005685 Cupin domain; Region: Cupin_2; cl17218 984262005686 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 984262005687 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984262005688 metal binding site 2 [ion binding]; metal-binding site 984262005689 putative DNA binding helix; other site 984262005690 metal binding site 1 [ion binding]; metal-binding site 984262005691 dimer interface [polypeptide binding]; other site 984262005692 structural Zn2+ binding site [ion binding]; other site 984262005693 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 984262005694 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 984262005695 FMN-binding domain; Region: FMN_bind; cl01081 984262005696 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 984262005697 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 984262005698 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 984262005699 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 984262005700 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 984262005701 catalytic loop [active] 984262005702 iron binding site [ion binding]; other site 984262005703 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 984262005704 FAD binding pocket [chemical binding]; other site 984262005705 FAD binding motif [chemical binding]; other site 984262005706 phosphate binding motif [ion binding]; other site 984262005707 beta-alpha-beta structure motif; other site 984262005708 NAD binding pocket [chemical binding]; other site 984262005709 fumarylacetoacetase; Region: PLN02856 984262005710 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 984262005711 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 984262005712 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 984262005713 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 984262005714 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 984262005715 putative RNA binding site [nucleotide binding]; other site 984262005716 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 984262005717 S-adenosylmethionine binding site [chemical binding]; other site 984262005718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 984262005719 Bacterial SH3 domain homologues; Region: SH3b; smart00287 984262005720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984262005721 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 984262005722 NAD(P) binding site [chemical binding]; other site 984262005723 active site 984262005724 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 984262005725 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 984262005726 ABC-ATPase subunit interface; other site 984262005727 dimer interface [polypeptide binding]; other site 984262005728 putative PBP binding regions; other site 984262005729 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 984262005730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262005731 Walker A/P-loop; other site 984262005732 ATP binding site [chemical binding]; other site 984262005733 Q-loop/lid; other site 984262005734 ABC transporter signature motif; other site 984262005735 Walker B; other site 984262005736 D-loop; other site 984262005737 H-loop/switch region; other site 984262005738 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 984262005739 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 984262005740 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 984262005741 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 984262005742 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 984262005743 N-terminal plug; other site 984262005744 ligand-binding site [chemical binding]; other site 984262005745 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 984262005746 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 984262005747 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 984262005748 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 984262005749 DNA binding site [nucleotide binding] 984262005750 active site 984262005751 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 984262005752 active site 984262005753 Domain of unknown function (DUF202); Region: DUF202; pfam02656 984262005754 Imelysin; Region: Peptidase_M75; cl09159 984262005755 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262005756 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005757 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262005758 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005759 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262005760 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 984262005761 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 984262005762 E3 interaction surface; other site 984262005763 lipoyl attachment site [posttranslational modification]; other site 984262005764 e3 binding domain; Region: E3_binding; pfam02817 984262005765 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984262005766 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 984262005767 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 984262005768 SnoaL-like domain; Region: SnoaL_3; pfam13474 984262005769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262005770 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 984262005771 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 984262005772 dimerization interface [polypeptide binding]; other site 984262005773 DPS ferroxidase diiron center [ion binding]; other site 984262005774 ion pore; other site 984262005775 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 984262005776 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 984262005777 active site 984262005778 Substrate binding site; other site 984262005779 Mg++ binding site; other site 984262005780 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 984262005781 putative trimer interface [polypeptide binding]; other site 984262005782 putative CoA binding site [chemical binding]; other site 984262005783 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 984262005784 active site 984262005785 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 984262005786 stage V sporulation protein K; Region: spore_V_K; TIGR02881 984262005787 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262005788 Walker A motif; other site 984262005789 ATP binding site [chemical binding]; other site 984262005790 Walker B motif; other site 984262005791 arginine finger; other site 984262005792 stage V sporulation protein K; Region: spore_V_K; TIGR02881 984262005793 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262005794 Walker A motif; other site 984262005795 ATP binding site [chemical binding]; other site 984262005796 Walker B motif; other site 984262005797 arginine finger; other site 984262005798 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 984262005799 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984262005800 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984262005801 Walker A/P-loop; other site 984262005802 ATP binding site [chemical binding]; other site 984262005803 Q-loop/lid; other site 984262005804 ABC transporter signature motif; other site 984262005805 Walker B; other site 984262005806 D-loop; other site 984262005807 H-loop/switch region; other site 984262005808 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 984262005809 FtsX-like permease family; Region: FtsX; pfam02687 984262005810 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984262005811 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 984262005812 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 984262005813 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 984262005814 P loop; other site 984262005815 Nucleotide binding site [chemical binding]; other site 984262005816 DTAP/Switch II; other site 984262005817 Switch I; other site 984262005818 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 984262005819 Magnesium ion binding site [ion binding]; other site 984262005820 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 984262005821 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 984262005822 catalytic motif [active] 984262005823 Zn binding site [ion binding]; other site 984262005824 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 984262005825 RibD C-terminal domain; Region: RibD_C; cl17279 984262005826 EamA-like transporter family; Region: EamA; cl17759 984262005827 Leucine rich repeat; Region: LRR_8; pfam13855 984262005828 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262005829 Walker A motif; other site 984262005830 ATP binding site [chemical binding]; other site 984262005831 Walker B motif; other site 984262005832 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 984262005833 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262005834 catalytic residues [active] 984262005835 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 984262005836 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 984262005837 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 984262005838 putative acyl-acceptor binding pocket; other site 984262005839 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 984262005840 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 984262005841 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 984262005842 ApbE family; Region: ApbE; pfam02424 984262005843 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 984262005844 active site 2 [active] 984262005845 active site 1 [active] 984262005846 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 984262005847 Protein of unknown function DUF72; Region: DUF72; pfam01904 984262005848 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262005849 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262005850 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 984262005851 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984262005852 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984262005853 active site 984262005854 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 984262005855 MG2 domain; Region: A2M_N; pfam01835 984262005856 Alpha-2-macroglobulin family; Region: A2M; pfam00207 984262005857 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 984262005858 surface patch; other site 984262005859 thioester region; other site 984262005860 specificity defining residues; other site 984262005861 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 984262005862 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 984262005863 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 984262005864 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 984262005865 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 984262005866 Electron transfer flavoprotein domain; Region: ETF; pfam01012 984262005867 Ligand binding site [chemical binding]; other site 984262005868 Ion transport protein; Region: Ion_trans; pfam00520 984262005869 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 984262005870 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 984262005871 folate binding site [chemical binding]; other site 984262005872 NADP+ binding site [chemical binding]; other site 984262005873 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 984262005874 putative active site [active] 984262005875 putative CoA binding site [chemical binding]; other site 984262005876 nudix motif; other site 984262005877 metal binding site [ion binding]; metal-binding site 984262005878 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 984262005879 active site 984262005880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984262005881 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 984262005882 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262005883 MULE transposase domain; Region: MULE; pfam10551 984262005884 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 984262005885 catalytic site [active] 984262005886 putative active site [active] 984262005887 putative substrate binding site [chemical binding]; other site 984262005888 MoxR-like ATPases [General function prediction only]; Region: COG0714 984262005889 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 984262005890 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 984262005891 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 984262005892 metal-binding site [ion binding] 984262005893 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 984262005894 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 984262005895 Probable Catalytic site; other site 984262005896 metal-binding site 984262005897 recombination protein RecR; Reviewed; Region: recR; PRK00076 984262005898 RecR protein; Region: RecR; pfam02132 984262005899 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 984262005900 putative active site [active] 984262005901 putative metal-binding site [ion binding]; other site 984262005902 tetramer interface [polypeptide binding]; other site 984262005903 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 984262005904 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 984262005905 oligomer interface [polypeptide binding]; other site 984262005906 active site 984262005907 metal binding site [ion binding]; metal-binding site 984262005908 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 984262005909 PA/protease or protease-like domain interface [polypeptide binding]; other site 984262005910 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005911 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 984262005912 catalytic core [active] 984262005913 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262005914 MULE transposase domain; Region: MULE; pfam10551 984262005915 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 984262005916 trimer interface [polypeptide binding]; other site 984262005917 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 984262005918 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 984262005919 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 984262005920 active site 984262005921 substrate binding site [chemical binding]; other site 984262005922 Mg2+ binding site [ion binding]; other site 984262005923 Lipase (class 3). 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...; Region: Lipase_3; cd00519 984262005924 active site flap/lid [active] 984262005925 nucleophilic elbow; other site 984262005926 catalytic triad [active] 984262005927 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 984262005928 active site 984262005929 Calx-beta domain; Region: Calx-beta; cl02522 984262005930 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005931 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262005932 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 984262005933 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262005934 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 984262005935 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 984262005936 C-N hydrolase family amidase; Provisional; Region: PRK10438 984262005937 putative active site [active] 984262005938 catalytic triad [active] 984262005939 dimer interface [polypeptide binding]; other site 984262005940 multimer interface [polypeptide binding]; other site 984262005941 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 984262005942 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 984262005943 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 984262005944 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984262005945 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 984262005946 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 984262005947 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262005948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262005949 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 984262005950 CoenzymeA binding site [chemical binding]; other site 984262005951 subunit interaction site [polypeptide binding]; other site 984262005952 PHB binding site; other site 984262005953 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 984262005954 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 984262005955 active site 984262005956 HIGH motif; other site 984262005957 KMSKS motif; other site 984262005958 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 984262005959 tRNA binding surface [nucleotide binding]; other site 984262005960 anticodon binding site; other site 984262005961 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 984262005962 dimer interface [polypeptide binding]; other site 984262005963 putative tRNA-binding site [nucleotide binding]; other site 984262005964 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 984262005965 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 984262005966 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 984262005967 binding surface 984262005968 TPR motif; other site 984262005969 CHAT domain; Region: CHAT; pfam12770 984262005970 glycine dehydrogenase; Provisional; Region: PRK05367 984262005971 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 984262005972 tetramer interface [polypeptide binding]; other site 984262005973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262005974 catalytic residue [active] 984262005975 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 984262005976 tetramer interface [polypeptide binding]; other site 984262005977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262005978 catalytic residue [active] 984262005979 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984262005980 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984262005981 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 984262005982 Walker A/P-loop; other site 984262005983 ATP binding site [chemical binding]; other site 984262005984 Q-loop/lid; other site 984262005985 ABC transporter signature motif; other site 984262005986 Walker B; other site 984262005987 D-loop; other site 984262005988 H-loop/switch region; other site 984262005989 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 984262005990 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 984262005991 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262005992 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 984262005993 putative acetyltransferase YhhY; Provisional; Region: PRK10140 984262005994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984262005995 Coenzyme A binding pocket [chemical binding]; other site 984262005996 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 984262005997 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 984262005998 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984262005999 Zn2+ binding site [ion binding]; other site 984262006000 Mg2+ binding site [ion binding]; other site 984262006001 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006002 Family description; Region: VCBS; pfam13517 984262006003 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006004 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 984262006005 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 984262006006 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006007 Tetratricopeptide repeat; Region: TPR_10; cl17452 984262006008 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 984262006009 TPR motif; other site 984262006010 binding surface 984262006011 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006012 CHAT domain; Region: CHAT; pfam12770 984262006013 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 984262006014 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 984262006015 active site 984262006016 substrate binding site [chemical binding]; other site 984262006017 metal binding site [ion binding]; metal-binding site 984262006018 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 984262006019 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 984262006020 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984262006021 catalytic residue [active] 984262006022 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 984262006023 DNA binding residues [nucleotide binding] 984262006024 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 984262006025 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 984262006026 DNA binding residues [nucleotide binding] 984262006027 dimerization interface [polypeptide binding]; other site 984262006028 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 984262006029 anti sigma factor interaction site; other site 984262006030 regulatory phosphorylation site [posttranslational modification]; other site 984262006031 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 984262006032 heme-binding site [chemical binding]; other site 984262006033 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262006034 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262006035 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 984262006036 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 984262006037 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 984262006038 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 984262006039 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 984262006040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262006041 ATP binding site [chemical binding]; other site 984262006042 Mg2+ binding site [ion binding]; other site 984262006043 G-X-G motif; other site 984262006044 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 984262006045 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 984262006046 Sulfate transporter family; Region: Sulfate_transp; pfam00916 984262006047 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 984262006048 anti sigma factor interaction site; other site 984262006049 regulatory phosphorylation site [posttranslational modification]; other site 984262006050 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 984262006051 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 984262006052 PAS domain; Region: PAS; smart00091 984262006053 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 984262006054 putative active site [active] 984262006055 heme pocket [chemical binding]; other site 984262006056 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 984262006057 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 984262006058 putative active site [active] 984262006059 heme pocket [chemical binding]; other site 984262006060 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 984262006061 putative active site [active] 984262006062 heme pocket [chemical binding]; other site 984262006063 HAMP domain; Region: HAMP; pfam00672 984262006064 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 984262006065 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 984262006066 dimer interface [polypeptide binding]; other site 984262006067 putative CheW interface [polypeptide binding]; other site 984262006068 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 984262006069 Response regulator receiver domain; Region: Response_reg; pfam00072 984262006070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262006071 active site 984262006072 phosphorylation site [posttranslational modification] 984262006073 intermolecular recognition site; other site 984262006074 dimerization interface [polypeptide binding]; other site 984262006075 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 984262006076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262006077 active site 984262006078 phosphorylation site [posttranslational modification] 984262006079 intermolecular recognition site; other site 984262006080 dimerization interface [polypeptide binding]; other site 984262006081 CheB methylesterase; Region: CheB_methylest; pfam01339 984262006082 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 984262006083 putative binding surface; other site 984262006084 active site 984262006085 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 984262006086 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262006087 ATP binding site [chemical binding]; other site 984262006088 Mg2+ binding site [ion binding]; other site 984262006089 G-X-G motif; other site 984262006090 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 984262006091 Immunoglobulin domain; Region: Ig; cl11960 984262006092 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 984262006093 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 984262006094 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 984262006095 S-adenosylmethionine binding site [chemical binding]; other site 984262006096 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 984262006097 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 984262006098 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262006099 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 984262006100 Part of AAA domain; Region: AAA_19; pfam13245 984262006101 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 984262006102 Family description; Region: UvrD_C_2; pfam13538 984262006103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 984262006104 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 984262006105 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 984262006106 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 984262006107 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 984262006108 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 984262006109 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 984262006110 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 984262006111 homodimer interface [polypeptide binding]; other site 984262006112 substrate-cofactor binding pocket; other site 984262006113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262006114 catalytic residue [active] 984262006115 exonuclease subunit SbcD; Provisional; Region: PRK10966 984262006116 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 984262006117 active site 984262006118 metal binding site [ion binding]; metal-binding site 984262006119 DNA binding site [nucleotide binding] 984262006120 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 984262006121 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 984262006122 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 984262006123 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 984262006124 UbiA prenyltransferase family; Region: UbiA; pfam01040 984262006125 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 984262006126 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 984262006127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262006128 ATP binding site [chemical binding]; other site 984262006129 Mg2+ binding site [ion binding]; other site 984262006130 G-X-G motif; other site 984262006131 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 984262006132 anchoring element; other site 984262006133 dimer interface [polypeptide binding]; other site 984262006134 ATP binding site [chemical binding]; other site 984262006135 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 984262006136 active site 984262006137 putative metal-binding site [ion binding]; other site 984262006138 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 984262006139 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262006140 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262006141 ATP binding site [chemical binding]; other site 984262006142 Mg2+ binding site [ion binding]; other site 984262006143 G-X-G motif; other site 984262006144 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 984262006145 active site 984262006146 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 984262006147 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 984262006148 active site 984262006149 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 984262006150 nudix motif; other site 984262006151 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 984262006152 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 984262006153 Isochorismatase family; Region: Isochorismatase; pfam00857 984262006154 catalytic triad [active] 984262006155 metal binding site [ion binding]; metal-binding site 984262006156 conserved cis-peptide bond; other site 984262006157 AAA domain; Region: AAA_21; pfam13304 984262006158 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 984262006159 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 984262006160 hydrophobic ligand binding site; other site 984262006161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984262006162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984262006163 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 984262006164 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 984262006165 FAD binding pocket [chemical binding]; other site 984262006166 FAD binding motif [chemical binding]; other site 984262006167 phosphate binding motif [ion binding]; other site 984262006168 beta-alpha-beta structure motif; other site 984262006169 NAD(p) ribose binding residues [chemical binding]; other site 984262006170 NAD binding pocket [chemical binding]; other site 984262006171 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 984262006172 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 984262006173 catalytic loop [active] 984262006174 iron binding site [ion binding]; other site 984262006175 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 984262006176 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 984262006177 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 984262006178 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 984262006179 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 984262006180 active site 984262006181 NTP binding site [chemical binding]; other site 984262006182 metal binding triad [ion binding]; metal-binding site 984262006183 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 984262006184 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984262006185 Zn2+ binding site [ion binding]; other site 984262006186 Mg2+ binding site [ion binding]; other site 984262006187 YHYH protein; Region: YHYH; pfam14240 984262006188 Ca2+ binding site [ion binding]; other site 984262006189 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 984262006190 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262006191 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 984262006192 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 984262006193 YHYH protein; Region: YHYH; pfam14240 984262006194 YHYH protein; Region: YHYH; pfam14240 984262006195 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 984262006196 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262006197 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 984262006198 DNA binding residues [nucleotide binding] 984262006199 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 984262006200 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 984262006201 TM2 domain; Region: TM2; pfam05154 984262006202 Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction; Region: CysPc; cl00051 984262006203 catalytic site [active] 984262006204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 984262006205 Band_7_flotillin: 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. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 984262006206 ATPase involved in DNA repair; Region: DUF3686; pfam12458 984262006207 AAA domain; Region: AAA_22; pfam13401 984262006208 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262006209 Walker A motif; other site 984262006210 ATP binding site [chemical binding]; other site 984262006211 Walker B motif; other site 984262006212 arginine finger; other site 984262006213 MG2 domain; Region: A2M_N; pfam01835 984262006214 Alpha-2-macroglobulin family; Region: A2M; pfam00207 984262006215 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 984262006216 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984262006217 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 984262006218 substrate binding site [chemical binding]; other site 984262006219 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 984262006220 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 984262006221 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 984262006222 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 984262006223 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 984262006224 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 984262006225 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 984262006226 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 984262006227 methionine aminotransferase; Validated; Region: PRK09082 984262006228 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 984262006229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262006230 homodimer interface [polypeptide binding]; other site 984262006231 catalytic residue [active] 984262006232 signal recognition particle protein; Provisional; Region: PRK10867 984262006233 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 984262006234 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 984262006235 P loop; other site 984262006236 GTP binding site [chemical binding]; other site 984262006237 Signal peptide binding domain; Region: SRP_SPB; pfam02978 984262006238 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262006239 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262006240 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262006241 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262006242 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262006243 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 984262006244 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 984262006245 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 984262006246 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 984262006247 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262006248 FAD binding domain; Region: FAD_binding_4; pfam01565 984262006249 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 984262006250 argininosuccinate lyase; Provisional; Region: PRK00855 984262006251 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 984262006252 active sites [active] 984262006253 tetramer interface [polypeptide binding]; other site 984262006254 hypothetical protein; Validated; Region: PRK06886 984262006255 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 984262006256 active site 984262006257 Clp protease; Region: CLP_protease; pfam00574 984262006258 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 984262006259 oligomer interface [polypeptide binding]; other site 984262006260 active site residues [active] 984262006261 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 984262006262 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 984262006263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262006264 Walker A motif; other site 984262006265 ATP binding site [chemical binding]; other site 984262006266 Walker B motif; other site 984262006267 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984262006268 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 984262006269 phosphoglyceromutase; Provisional; Region: PRK05434 984262006270 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 984262006271 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 984262006272 Bacitracin resistance protein BacA; Region: BacA; pfam02673 984262006273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 984262006274 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 984262006275 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 984262006276 methionine sulfoxide reductase A; Provisional; Region: PRK14054 984262006277 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 984262006278 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 984262006279 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984262006280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262006281 Walker A/P-loop; other site 984262006282 ATP binding site [chemical binding]; other site 984262006283 Q-loop/lid; other site 984262006284 ABC transporter signature motif; other site 984262006285 Walker B; other site 984262006286 D-loop; other site 984262006287 H-loop/switch region; other site 984262006288 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 984262006289 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984262006290 catalytic residue [active] 984262006291 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 984262006292 S-adenosylmethionine binding site [chemical binding]; other site 984262006293 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 984262006294 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 984262006295 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 984262006296 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984262006297 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 984262006298 GTP cyclohydrolase I; Provisional; Region: PLN03044 984262006299 active site 984262006300 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 984262006301 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 984262006302 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 984262006303 nucleotide binding pocket [chemical binding]; other site 984262006304 K-X-D-G motif; other site 984262006305 catalytic site [active] 984262006306 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 984262006307 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 984262006308 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 984262006309 Dimer interface [polypeptide binding]; other site 984262006310 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 984262006311 L-aspartate oxidase; Provisional; Region: PRK06175 984262006312 L-aspartate oxidase; Provisional; Region: PRK09077 984262006313 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 984262006314 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 984262006315 NAD synthetase; Provisional; Region: PRK13981 984262006316 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 984262006317 multimer interface [polypeptide binding]; other site 984262006318 active site 984262006319 catalytic triad [active] 984262006320 protein interface 1 [polypeptide binding]; other site 984262006321 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 984262006322 homodimer interface [polypeptide binding]; other site 984262006323 NAD binding pocket [chemical binding]; other site 984262006324 ATP binding pocket [chemical binding]; other site 984262006325 Mg binding site [ion binding]; other site 984262006326 active-site loop [active] 984262006327 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 984262006328 dihydrodipicolinate synthase; Region: dapA; TIGR00674 984262006329 dimer interface [polypeptide binding]; other site 984262006330 active site 984262006331 catalytic residue [active] 984262006332 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 984262006333 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 984262006334 Protein of unknown function (DUF2441); Region: DUF2441; pfam10386 984262006335 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 984262006336 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 984262006337 active site 984262006338 Zn binding site [ion binding]; other site 984262006339 Helix-turn-helix domain; Region: HTH_18; pfam12833 984262006340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262006341 short chain dehydrogenase; Provisional; Region: PRK06197 984262006342 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 984262006343 putative NAD(P) binding site [chemical binding]; other site 984262006344 active site 984262006345 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984262006346 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 984262006347 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984262006348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262006349 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 984262006350 ATP binding site [chemical binding]; other site 984262006351 Mg2+ binding site [ion binding]; other site 984262006352 G-X-G motif; other site 984262006353 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262006354 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 984262006355 RNA binding surface [nucleotide binding]; other site 984262006356 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262006357 hypothetical protein; Reviewed; Region: PRK12497 984262006358 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 984262006359 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 984262006360 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 984262006361 dimer interface [polypeptide binding]; other site 984262006362 active site 984262006363 Lipoate-protein ligase B [Coenzyme metabolism]; Region: LipB; COG0321 984262006364 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984262006365 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 984262006366 RNA binding surface [nucleotide binding]; other site 984262006367 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984262006368 active site 984262006369 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 984262006370 S-adenosylmethionine binding site [chemical binding]; other site 984262006371 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 984262006372 CoA binding domain; Region: CoA_binding_2; pfam13380 984262006373 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 984262006374 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 984262006375 substrate binding site [chemical binding]; other site 984262006376 active site 984262006377 polyphosphate kinase; Provisional; Region: PRK05443 984262006378 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 984262006379 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 984262006380 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 984262006381 domain interface [polypeptide binding]; other site 984262006382 active site 984262006383 catalytic site [active] 984262006384 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 984262006385 domain interface [polypeptide binding]; other site 984262006386 active site 984262006387 catalytic site [active] 984262006388 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 984262006389 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984262006390 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984262006391 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 984262006392 Walker A/P-loop; other site 984262006393 ATP binding site [chemical binding]; other site 984262006394 Q-loop/lid; other site 984262006395 ABC transporter signature motif; other site 984262006396 Walker B; other site 984262006397 D-loop; other site 984262006398 H-loop/switch region; other site 984262006399 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 984262006400 nucleotide binding site [chemical binding]; other site 984262006401 substrate binding site [chemical binding]; other site 984262006402 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262006403 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262006404 ligand binding site [chemical binding]; other site 984262006405 Predicted ATPase [General function prediction only]; Region: COG4637 984262006406 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262006407 Walker A/P-loop; other site 984262006408 ATP binding site [chemical binding]; other site 984262006409 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 984262006410 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 984262006411 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 984262006412 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006413 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 984262006414 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 984262006415 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 984262006416 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 984262006417 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 984262006418 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 984262006419 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 984262006420 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 984262006421 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 984262006422 ATP binding site [chemical binding]; other site 984262006423 putative Mg++ binding site [ion binding]; other site 984262006424 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 984262006425 Transposase IS200 like; Region: Y1_Tnp; pfam01797 984262006426 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 984262006427 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984262006428 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984262006429 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262006430 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 984262006431 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262006432 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 984262006433 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 984262006434 active site 984262006435 PHP Thumb interface [polypeptide binding]; other site 984262006436 metal binding site [ion binding]; metal-binding site 984262006437 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 984262006438 generic binding surface I; other site 984262006439 generic binding surface II; other site 984262006440 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262006441 Leucine-rich repeats; other site 984262006442 Substrate binding site [chemical binding]; other site 984262006443 Leucine rich repeat; Region: LRR_8; pfam13855 984262006444 Leucine rich repeat; Region: LRR_8; pfam13855 984262006445 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 984262006446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 984262006447 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 984262006448 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 984262006449 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 984262006450 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 984262006451 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 984262006452 ADP binding site [chemical binding]; other site 984262006453 magnesium binding site [ion binding]; other site 984262006454 putative shikimate binding site; other site 984262006455 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 984262006456 homodimer interface [polypeptide binding]; other site 984262006457 catalytic residues [active] 984262006458 NAD binding site [chemical binding]; other site 984262006459 substrate binding pocket [chemical binding]; other site 984262006460 flexible flap; other site 984262006461 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 984262006462 phosphate binding site [ion binding]; other site 984262006463 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 984262006464 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 984262006465 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 984262006466 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 984262006467 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 984262006468 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 984262006469 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 984262006470 Na binding site [ion binding]; other site 984262006471 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 984262006472 Na binding site [ion binding]; other site 984262006473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262006474 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262006475 dimer interface [polypeptide binding]; other site 984262006476 phosphorylation site [posttranslational modification] 984262006477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262006478 ATP binding site [chemical binding]; other site 984262006479 Mg2+ binding site [ion binding]; other site 984262006480 G-X-G motif; other site 984262006481 Response regulator receiver domain; Region: Response_reg; pfam00072 984262006482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262006483 active site 984262006484 phosphorylation site [posttranslational modification] 984262006485 intermolecular recognition site; other site 984262006486 dimerization interface [polypeptide binding]; other site 984262006487 acetyl-CoA synthetase; Provisional; Region: PRK00174 984262006488 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 984262006489 active site 984262006490 CoA binding site [chemical binding]; other site 984262006491 acyl-activating enzyme (AAE) consensus motif; other site 984262006492 AMP binding site [chemical binding]; other site 984262006493 acetate binding site [chemical binding]; other site 984262006494 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262006495 ligand binding site [chemical binding]; other site 984262006496 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262006497 ligand binding site [chemical binding]; other site 984262006498 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262006499 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 984262006500 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 984262006501 active site 984262006502 catalytic site [active] 984262006503 substrate binding site [chemical binding]; other site 984262006504 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 984262006505 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 984262006506 inhibitor-cofactor binding pocket; inhibition site 984262006507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262006508 catalytic residue [active] 984262006509 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 984262006510 dimer interface [polypeptide binding]; other site 984262006511 FMN binding site [chemical binding]; other site 984262006512 Pirin; Region: Pirin; pfam02678 984262006513 Pirin-related protein [General function prediction only]; Region: COG1741 984262006514 putative transposase OrfB; Reviewed; Region: PHA02517 984262006515 HTH-like domain; Region: HTH_21; pfam13276 984262006516 Integrase core domain; Region: rve; pfam00665 984262006517 Integrase core domain; Region: rve_3; pfam13683 984262006518 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 984262006519 DNA-binding interface [nucleotide binding]; DNA binding site 984262006520 nucleoside transporter; Region: nupC; TIGR00804 984262006521 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 984262006522 Nucleoside recognition; Region: Gate; pfam07670 984262006523 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 984262006524 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 984262006525 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 984262006526 Chorismate mutase type II; Region: CM_2; smart00830 984262006527 Putative cyclase; Region: Cyclase; pfam04199 984262006528 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 984262006529 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 984262006530 putative active site [active] 984262006531 substrate binding site [chemical binding]; other site 984262006532 putative cosubstrate binding site; other site 984262006533 catalytic site [active] 984262006534 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 984262006535 substrate binding site [chemical binding]; other site 984262006536 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 984262006537 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 984262006538 substrate binding site [chemical binding]; other site 984262006539 hexamer interface [polypeptide binding]; other site 984262006540 metal binding site [ion binding]; metal-binding site 984262006541 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 984262006542 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 984262006543 active site 984262006544 catalytic tetrad [active] 984262006545 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 984262006546 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 984262006547 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 984262006548 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 984262006549 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 984262006550 putative active site [active] 984262006551 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 984262006552 putative catalytic residues [active] 984262006553 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 984262006554 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 984262006555 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 984262006556 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 984262006557 active site residue [active] 984262006558 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 984262006559 rod shape-determining protein MreC; Provisional; Region: PRK13922 984262006560 rod shape-determining protein MreC; Region: MreC; pfam04085 984262006561 rod shape-determining protein MreB; Provisional; Region: PRK13927 984262006562 MreB and similar proteins; Region: MreB_like; cd10225 984262006563 nucleotide binding site [chemical binding]; other site 984262006564 Mg binding site [ion binding]; other site 984262006565 putative protofilament interaction site [polypeptide binding]; other site 984262006566 RodZ interaction site [polypeptide binding]; other site 984262006567 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006568 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006569 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006570 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006571 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006572 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006573 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006574 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262006575 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 984262006576 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 984262006577 DNA-binding interface [nucleotide binding]; DNA binding site 984262006578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984262006579 Integrase core domain; Region: rve; pfam00665 984262006580 Integrase core domain; Region: rve_3; pfam13683 984262006581 Conserved TM helix; Region: TM_helix; pfam05552 984262006582 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984262006583 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 984262006584 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 984262006585 Glutamate binding site [chemical binding]; other site 984262006586 NAD binding site [chemical binding]; other site 984262006587 catalytic residues [active] 984262006588 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 984262006589 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; cl17426 984262006590 folate binding site [chemical binding]; other site 984262006591 NADP+ binding site [chemical binding]; other site 984262006592 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 984262006593 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006594 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984262006595 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 984262006596 FAD binding site [chemical binding]; other site 984262006597 homotetramer interface [polypeptide binding]; other site 984262006598 substrate binding pocket [chemical binding]; other site 984262006599 catalytic base [active] 984262006600 RDD family; Region: RDD; pfam06271 984262006601 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 984262006602 DNA photolyase; Region: DNA_photolyase; pfam00875 984262006603 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 984262006604 DNA polymerase I; Provisional; Region: PRK05755 984262006605 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 984262006606 active site 984262006607 metal binding site 1 [ion binding]; metal-binding site 984262006608 putative 5' ssDNA interaction site; other site 984262006609 metal binding site 3; metal-binding site 984262006610 metal binding site 2 [ion binding]; metal-binding site 984262006611 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 984262006612 putative DNA binding site [nucleotide binding]; other site 984262006613 putative metal binding site [ion binding]; other site 984262006614 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 984262006615 active site 984262006616 catalytic site [active] 984262006617 substrate binding site [chemical binding]; other site 984262006618 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 984262006619 active site 984262006620 DNA binding site [nucleotide binding] 984262006621 catalytic site [active] 984262006622 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 984262006623 active site 984262006624 iron coordination sites [ion binding]; other site 984262006625 substrate binding pocket [chemical binding]; other site 984262006626 P-loop containing region of AAA domain; Region: AAA_29; cl17516 984262006627 AAA domain; Region: AAA_21; pfam13304 984262006628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262006629 ABC transporter signature motif; other site 984262006630 Walker B; other site 984262006631 D-loop; other site 984262006632 H-loop/switch region; other site 984262006633 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 984262006634 DNA repair protein RadA; Provisional; Region: PRK11823 984262006635 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 984262006636 Walker A motif/ATP binding site; other site 984262006637 ATP binding site [chemical binding]; other site 984262006638 Walker B motif; other site 984262006639 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 984262006640 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984262006641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 984262006642 active site 984262006643 phosphorylation site [posttranslational modification] 984262006644 intermolecular recognition site; other site 984262006645 dimerization interface [polypeptide binding]; other site 984262006646 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 984262006647 DNA binding site [nucleotide binding] 984262006648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984262006649 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 984262006650 dimer interface [polypeptide binding]; other site 984262006651 phosphorylation site [posttranslational modification] 984262006652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 984262006653 ATP binding site [chemical binding]; other site 984262006654 Mg2+ binding site [ion binding]; other site 984262006655 G-X-G motif; other site 984262006656 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 984262006657 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006658 Ion transport protein; Region: Ion_trans; pfam00520 984262006659 Ion channel; Region: Ion_trans_2; pfam07885 984262006660 Leucine rich repeat; Region: LRR_8; pfam13855 984262006661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984262006662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984262006663 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 984262006664 dimerization interface [polypeptide binding]; other site 984262006665 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 984262006666 putative catalytic residues [active] 984262006667 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 984262006668 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262006669 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262006670 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006671 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 984262006672 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 984262006673 NAD(P) binding site [chemical binding]; other site 984262006674 homotetramer interface [polypeptide binding]; other site 984262006675 homodimer interface [polypeptide binding]; other site 984262006676 active site 984262006677 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 984262006678 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 984262006679 hinge; other site 984262006680 active site 984262006681 RDD family; Region: RDD; pfam06271 984262006682 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 984262006683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262006684 Walker A/P-loop; other site 984262006685 ATP binding site [chemical binding]; other site 984262006686 Q-loop/lid; other site 984262006687 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262006688 ABC transporter signature motif; other site 984262006689 Walker B; other site 984262006690 D-loop; other site 984262006691 ABC transporter; Region: ABC_tran_2; pfam12848 984262006692 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984262006693 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 984262006694 AMP nucleosidase; Provisional; Region: PRK07115 984262006695 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 984262006696 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 984262006697 motif II; other site 984262006698 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 984262006699 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262006700 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 984262006701 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984262006702 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984262006703 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 984262006704 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 984262006705 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 984262006706 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 984262006707 binding surface 984262006708 TPR motif; other site 984262006709 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 984262006710 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984262006711 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 984262006712 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006713 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006714 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 984262006715 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 984262006716 active site 984262006717 catalytic triad [active] 984262006718 oxyanion hole [active] 984262006719 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 984262006720 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 984262006721 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 984262006722 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262006723 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 984262006724 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 984262006725 NADP binding site [chemical binding]; other site 984262006726 active site 984262006727 putative substrate binding site [chemical binding]; other site 984262006728 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 984262006729 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 984262006730 NADP-binding site; other site 984262006731 homotetramer interface [polypeptide binding]; other site 984262006732 substrate binding site [chemical binding]; other site 984262006733 homodimer interface [polypeptide binding]; other site 984262006734 active site 984262006735 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 984262006736 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 984262006737 metal-binding site 984262006738 HTH-like domain; Region: HTH_21; pfam13276 984262006739 Integrase core domain; Region: rve; pfam00665 984262006740 Integrase core domain; Region: rve_3; pfam13683 984262006741 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 984262006742 Uncharacterized conserved protein [Function unknown]; Region: COG1479 984262006743 Protein of unknown function DUF262; Region: DUF262; pfam03235 984262006744 Protein of unknown function DUF262; Region: DUF262; pfam03235 984262006745 AAA domain; Region: AAA_21; pfam13304 984262006746 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 984262006747 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 984262006748 putative active site [active] 984262006749 Zn binding site [ion binding]; other site 984262006750 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984262006751 Preprotein translocase subunit; Region: YajC; pfam02699 984262006752 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 984262006753 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 984262006754 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 984262006755 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262006756 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262006757 ligand binding site [chemical binding]; other site 984262006758 transcription antitermination factor NusB; Region: nusB; TIGR01951 984262006759 YceI-like domain; Region: YceI; pfam04264 984262006760 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 984262006761 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 984262006762 active site 984262006763 Zn binding site [ion binding]; other site 984262006764 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 984262006765 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 984262006766 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262006767 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 984262006768 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262006769 FOG: CBS domain [General function prediction only]; Region: COG0517 984262006770 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 984262006771 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 984262006772 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 984262006773 ATP binding site [chemical binding]; other site 984262006774 putative Mg++ binding site [ion binding]; other site 984262006775 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 984262006776 nucleotide binding region [chemical binding]; other site 984262006777 ATP-binding site [chemical binding]; other site 984262006778 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 984262006779 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262006780 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 984262006781 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 984262006782 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262006783 Walker A motif; other site 984262006784 ATP binding site [chemical binding]; other site 984262006785 Walker B motif; other site 984262006786 arginine finger; other site 984262006787 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 984262006788 Endonuclease I; Region: Endonuclease_1; cl01003 984262006789 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006790 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 984262006791 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 984262006792 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 984262006793 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262006794 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262006795 SnoaL-like domain; Region: SnoaL_2; pfam12680 984262006796 AIR carboxylase; Region: AIRC; pfam00731 984262006797 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 984262006798 ATP-grasp domain; Region: ATP-grasp; pfam02222 984262006799 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 984262006800 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; pfam13579 984262006801 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 984262006802 hypothetical protein; Validated; Region: PRK02101 984262006803 LemA family; Region: LemA; cl00742 984262006804 Phage-related minor tail protein [Function unknown]; Region: COG5281 984262006805 YARHG domain; Region: YARHG; pfam13308 984262006806 YARHG domain; Region: YARHG; pfam13308 984262006807 YARHG domain; Region: YARHG; pfam13308 984262006808 Patatin-like phospholipase; Region: Patatin; pfam01734 984262006809 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 984262006810 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 984262006811 substrate binding site [chemical binding]; other site 984262006812 ligand binding site [chemical binding]; other site 984262006813 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 984262006814 substrate binding site [chemical binding]; other site 984262006815 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 984262006816 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 984262006817 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 984262006818 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 984262006819 HlyD family secretion protein; Region: HlyD_3; pfam13437 984262006820 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 984262006821 CHAT domain; Region: CHAT; cl17868 984262006822 AAA ATPase domain; Region: AAA_16; pfam13191 984262006823 Walker A motif; other site 984262006824 ATP binding site [chemical binding]; other site 984262006825 Walker B motif; other site 984262006826 arginine finger; other site 984262006827 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262006828 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 984262006829 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 984262006830 Caspase domain; Region: Peptidase_C14; pfam00656 984262006831 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 984262006832 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 984262006833 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 984262006834 CoA-ligase; Region: Ligase_CoA; pfam00549 984262006835 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006836 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006837 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006838 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006839 CHAT domain; Region: CHAT; pfam12770 984262006840 Protein of unknown function (DUF819); Region: DUF819; cl02317 984262006841 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 984262006842 TPR repeat; Region: TPR_11; pfam13414 984262006843 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 984262006844 TPR motif; other site 984262006845 TPR repeat; Region: TPR_11; pfam13414 984262006846 binding surface 984262006847 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262006848 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262006849 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262006850 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262006851 ligand binding site [chemical binding]; other site 984262006852 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 984262006853 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 984262006854 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 984262006855 E3 interaction surface; other site 984262006856 lipoyl attachment site [posttranslational modification]; other site 984262006857 e3 binding domain; Region: E3_binding; pfam02817 984262006858 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984262006859 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 984262006860 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 984262006861 AAA domain; Region: AAA_30; pfam13604 984262006862 Family description; Region: UvrD_C_2; pfam13538 984262006863 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 984262006864 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262006865 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 984262006866 active site 984262006867 multimer interface [polypeptide binding]; other site 984262006868 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006869 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006870 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 984262006871 binding surface 984262006872 TPR motif; other site 984262006873 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262006874 CHAT domain; Region: CHAT; pfam12770 984262006875 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 984262006876 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 984262006877 Protein of unknown function (DUF805); Region: DUF805; pfam05656 984262006878 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 984262006879 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 984262006880 inhibitor-cofactor binding pocket; inhibition site 984262006881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262006882 catalytic residue [active] 984262006883 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984262006884 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984262006885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262006886 Walker A/P-loop; other site 984262006887 ATP binding site [chemical binding]; other site 984262006888 Q-loop/lid; other site 984262006889 ABC transporter signature motif; other site 984262006890 Walker B; other site 984262006891 D-loop; other site 984262006892 H-loop/switch region; other site 984262006893 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 984262006894 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 984262006895 catalytic core [active] 984262006896 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 984262006897 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 984262006898 FeS/SAM binding site; other site 984262006899 biotin synthase; Region: bioB; TIGR00433 984262006900 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 984262006901 FeS/SAM binding site; other site 984262006902 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 984262006903 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 984262006904 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 984262006905 Substrate-binding site [chemical binding]; other site 984262006906 Substrate specificity [chemical binding]; other site 984262006907 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984262006908 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984262006909 Walker A/P-loop; other site 984262006910 ATP binding site [chemical binding]; other site 984262006911 Q-loop/lid; other site 984262006912 ABC transporter signature motif; other site 984262006913 Walker B; other site 984262006914 D-loop; other site 984262006915 H-loop/switch region; other site 984262006916 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 984262006917 Family description; Region: UvrD_C_2; pfam13538 984262006918 Fatty acid desaturase; Region: FA_desaturase; pfam00487 984262006919 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 984262006920 putative di-iron ligands [ion binding]; other site 984262006921 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 984262006922 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 984262006923 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 984262006924 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 984262006925 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 984262006926 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 984262006927 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 984262006928 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 984262006929 conserved FAD binding motif [chemical binding]; other site 984262006930 TM2 domain; Region: TM2; pfam05154 984262006931 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 984262006932 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 984262006933 substrate binding pocket [chemical binding]; other site 984262006934 chain length determination region; other site 984262006935 substrate-Mg2+ binding site; other site 984262006936 catalytic residues [active] 984262006937 aspartate-rich region 1; other site 984262006938 active site lid residues [active] 984262006939 aspartate-rich region 2; other site 984262006940 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262006941 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 984262006942 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 984262006943 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 984262006944 generic binding surface II; other site 984262006945 generic binding surface I; other site 984262006946 short chain dehydrogenase; Provisional; Region: PRK06197 984262006947 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 984262006948 putative NAD(P) binding site [chemical binding]; other site 984262006949 active site 984262006950 GldM C-terminal domain; Region: GldM_C; pfam12080 984262006951 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 984262006952 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 984262006953 homodimer interface [polypeptide binding]; other site 984262006954 metal binding site [ion binding]; metal-binding site 984262006955 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 984262006956 homodimer interface [polypeptide binding]; other site 984262006957 active site 984262006958 putative chemical substrate binding site [chemical binding]; other site 984262006959 metal binding site [ion binding]; metal-binding site 984262006960 aspartate aminotransferase; Provisional; Region: PRK05764 984262006961 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 984262006962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262006963 homodimer interface [polypeptide binding]; other site 984262006964 catalytic residue [active] 984262006965 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 984262006966 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984262006967 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984262006968 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 984262006969 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 984262006970 binding surface 984262006971 TPR motif; other site 984262006972 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 984262006973 TPR motif; other site 984262006974 binding surface 984262006975 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 984262006976 binding surface 984262006977 TPR motif; other site 984262006978 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 984262006979 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 984262006980 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 984262006981 Ligand binding site; other site 984262006982 oligomer interface; other site 984262006983 YhhN-like protein; Region: YhhN; pfam07947 984262006984 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 984262006985 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 984262006986 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 984262006987 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 984262006988 Thymidine kinase; Region: TK; pfam00265 984262006989 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 984262006990 PhnA protein; Region: PhnA; pfam03831 984262006991 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 984262006992 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 984262006993 Ligand binding site; other site 984262006994 Putative Catalytic site; other site 984262006995 DXD motif; other site 984262006996 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 984262006997 putative active site [active] 984262006998 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 984262006999 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 984262007000 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 984262007001 intersubunit interface [polypeptide binding]; other site 984262007002 HmuY protein; Region: HmuY; pfam14064 984262007003 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 984262007004 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007005 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 984262007006 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984262007007 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 984262007008 putative substrate translocation pore; other site 984262007009 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984262007010 cytidylate kinase; Provisional; Region: cmk; PRK00023 984262007011 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 984262007012 CMP-binding site; other site 984262007013 The sites determining sugar specificity; other site 984262007014 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 984262007015 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 984262007016 CHAT domain; Region: CHAT; cl17868 984262007017 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 984262007018 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 984262007019 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984262007020 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984262007021 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 984262007022 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 984262007023 G1 box; other site 984262007024 GTP/Mg2+ binding site [chemical binding]; other site 984262007025 G2 box; other site 984262007026 Switch I region; other site 984262007027 G3 box; other site 984262007028 Switch II region; other site 984262007029 G4 box; other site 984262007030 G5 box; other site 984262007031 zinc transporter ZupT; Provisional; Region: PRK04201 984262007032 ZIP Zinc transporter; Region: Zip; pfam02535 984262007033 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 984262007034 Cna protein B-type domain; Region: Cna_B_2; pfam13715 984262007035 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 984262007036 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262007037 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 984262007038 Zn binding site [ion binding]; other site 984262007039 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 984262007040 Malic enzyme, N-terminal domain; Region: malic; pfam00390 984262007041 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 984262007042 putative NAD(P) binding site [chemical binding]; other site 984262007043 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 984262007044 guanosine monophosphate reductase, bacterial; Region: GMP_reduct_2; TIGR01306 984262007045 phosphate binding site [ion binding]; other site 984262007046 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 984262007047 Leucine rich repeat; Region: LRR_8; pfam13855 984262007048 Substrate binding site [chemical binding]; other site 984262007049 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262007050 Uncharacterized conserved protein [Function unknown]; Region: COG3937 984262007051 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 984262007052 flavoprotein, HI0933 family; Region: TIGR00275 984262007053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984262007054 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 984262007055 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 984262007056 putative catalytic site [active] 984262007057 putative metal binding site [ion binding]; other site 984262007058 putative phosphate binding site [ion binding]; other site 984262007059 FOG: WD40 repeat [General function prediction only]; Region: COG2319 984262007060 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 984262007061 structural tetrad; other site 984262007062 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 984262007063 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 984262007064 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 984262007065 trimer interface [polypeptide binding]; other site 984262007066 active site 984262007067 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 984262007068 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 984262007069 active site 984262007070 Substrate binding site; other site 984262007071 Mg++ binding site; other site 984262007072 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 984262007073 putative trimer interface [polypeptide binding]; other site 984262007074 putative CoA binding site [chemical binding]; other site 984262007075 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 984262007076 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984262007077 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 984262007078 dimerization interface [polypeptide binding]; other site 984262007079 peroxiredoxin; Provisional; Region: PRK13189 984262007080 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 984262007081 dimer interface [polypeptide binding]; other site 984262007082 decamer (pentamer of dimers) interface [polypeptide binding]; other site 984262007083 catalytic triad [active] 984262007084 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984262007085 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 984262007086 active site residue [active] 984262007087 CHAT domain; Region: CHAT; pfam12770 984262007088 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 984262007089 Cation efflux family; Region: Cation_efflux; pfam01545 984262007090 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 984262007091 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 984262007092 ATP binding site [chemical binding]; other site 984262007093 Mg++ binding site [ion binding]; other site 984262007094 motif III; other site 984262007095 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 984262007096 nucleotide binding region [chemical binding]; other site 984262007097 ATP-binding site [chemical binding]; other site 984262007098 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262007099 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262007100 ligand binding site [chemical binding]; other site 984262007101 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 984262007102 heme-binding site [chemical binding]; other site 984262007103 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262007104 Tubby C 2; Region: Tub_2; cl02043 984262007105 Tubby C 2; Region: Tub_2; cl02043 984262007106 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 984262007107 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984262007108 putative catalytic residues [active] 984262007109 spermidine synthase; Provisional; Region: PRK03612 984262007110 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 984262007111 S-adenosylmethionine binding site [chemical binding]; other site 984262007112 Gram-negative bacterial tonB protein; Region: TonB; cl10048 984262007113 Gram-negative bacterial tonB protein; Region: TonB; cl10048 984262007114 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 984262007115 TPR motif; other site 984262007116 binding surface 984262007117 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 984262007118 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 984262007119 putative NAD(P) binding site [chemical binding]; other site 984262007120 homodimer interface [polypeptide binding]; other site 984262007121 homotetramer interface [polypeptide binding]; other site 984262007122 active site 984262007123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984262007124 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984262007125 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262007126 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262007127 ligand binding site [chemical binding]; other site 984262007128 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 984262007129 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 984262007130 active site 984262007131 (T/H)XGH motif; other site 984262007132 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 984262007133 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262007134 Walker A/P-loop; other site 984262007135 ATP binding site [chemical binding]; other site 984262007136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262007137 Q-loop/lid; other site 984262007138 ABC transporter signature motif; other site 984262007139 Walker B; other site 984262007140 D-loop; other site 984262007141 H-loop/switch region; other site 984262007142 TIGR02646 family protein; Region: TIGR02646 984262007143 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 984262007144 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 984262007145 tetramer interface [polypeptide binding]; other site 984262007146 heme binding pocket [chemical binding]; other site 984262007147 NADPH binding site [chemical binding]; other site 984262007148 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 984262007149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984262007150 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 984262007151 dimerization interface [polypeptide binding]; other site 984262007152 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 984262007153 Inward rectifier potassium channel; Region: IRK; pfam01007 984262007154 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 984262007155 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 984262007156 ATP binding site [chemical binding]; other site 984262007157 Mg++ binding site [ion binding]; other site 984262007158 motif III; other site 984262007159 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 984262007160 nucleotide binding region [chemical binding]; other site 984262007161 ATP-binding site [chemical binding]; other site 984262007162 dihydrodipicolinate reductase; Provisional; Region: PRK00048 984262007163 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 984262007164 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 984262007165 AAA domain; Region: AAA_21; pfam13304 984262007166 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 984262007167 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984262007168 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 984262007169 putative acyl-acceptor binding pocket; other site 984262007170 Predicted transcriptional regulators [Transcription]; Region: COG1510 984262007171 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 984262007172 putative DNA binding site [nucleotide binding]; other site 984262007173 putative Zn2+ binding site [ion binding]; other site 984262007174 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 984262007175 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 984262007176 putative NADP binding site [chemical binding]; other site 984262007177 putative substrate binding site [chemical binding]; other site 984262007178 active site 984262007179 hypothetical protein; Provisional; Region: PRK11820 984262007180 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 984262007181 Uncharacterized conserved protein; Region: KxDL; pfam10241 984262007182 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 984262007183 Guanylate kinase; Region: Guanylate_kin; pfam00625 984262007184 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 984262007185 catalytic site [active] 984262007186 G-X2-G-X-G-K; other site 984262007187 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 984262007188 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984262007189 MULE transposase domain; Region: MULE; pfam10551 984262007190 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984262007191 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 984262007192 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984262007193 Fic family protein [Function unknown]; Region: COG3177 984262007194 Fic/DOC family; Region: Fic; pfam02661 984262007195 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262007196 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 984262007197 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 984262007198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262007199 Walker A/P-loop; other site 984262007200 ATP binding site [chemical binding]; other site 984262007201 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262007202 Q-loop/lid; other site 984262007203 ABC transporter signature motif; other site 984262007204 Walker B; other site 984262007205 D-loop; other site 984262007206 H-loop/switch region; other site 984262007207 TIGR02646 family protein; Region: TIGR02646 984262007208 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 984262007209 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 984262007210 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 984262007211 ATP binding site [chemical binding]; other site 984262007212 putative Mg++ binding site [ion binding]; other site 984262007213 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 984262007214 Protein of unknown function DUF45; Region: DUF45; pfam01863 984262007215 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 984262007216 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 984262007217 inhibitor-cofactor binding pocket; inhibition site 984262007218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262007219 catalytic residue [active] 984262007220 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 984262007221 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 984262007222 dimerization interface [polypeptide binding]; other site 984262007223 DPS ferroxidase diiron center [ion binding]; other site 984262007224 ion pore; other site 984262007225 aminoacyl-tRNA ligase; Region: PLN02563 984262007226 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262007227 active site 984262007228 HIGH motif; other site 984262007229 nucleotide binding site [chemical binding]; other site 984262007230 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984262007231 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262007232 active site 984262007233 KMSKS motif; other site 984262007234 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262007235 active site 984262007236 KMSKS motif; other site 984262007237 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 984262007238 tRNA binding surface [nucleotide binding]; other site 984262007239 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 984262007240 S-adenosylmethionine binding site [chemical binding]; other site 984262007241 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 984262007242 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 984262007243 intersubunit interface [polypeptide binding]; other site 984262007244 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 984262007245 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 984262007246 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262007247 Walker A motif; other site 984262007248 ATP binding site [chemical binding]; other site 984262007249 Walker B motif; other site 984262007250 arginine finger; other site 984262007251 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984262007252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984262007253 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984262007254 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 984262007255 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 984262007256 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262007257 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 984262007258 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007259 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262007260 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262007261 PE-PPE domain; Region: PE-PPE; pfam08237 984262007262 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 984262007263 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262007264 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 984262007265 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 984262007266 DNA-binding interface [nucleotide binding]; DNA binding site 984262007267 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 984262007268 HTH-like domain; Region: HTH_21; pfam13276 984262007269 Integrase core domain; Region: rve; pfam00665 984262007270 Integrase core domain; Region: rve_3; pfam13683 984262007271 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262007272 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262007273 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 984262007274 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 984262007275 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 984262007276 catalytic residues [active] 984262007277 dimer interface [polypeptide binding]; other site 984262007278 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 984262007279 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 984262007280 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262007281 Walker A motif; other site 984262007282 ATP binding site [chemical binding]; other site 984262007283 Walker B motif; other site 984262007284 arginine finger; other site 984262007285 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984262007286 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 984262007287 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 984262007288 active site 984262007289 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 984262007290 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 984262007291 N-terminal plug; other site 984262007292 ligand-binding site [chemical binding]; other site 984262007293 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262007294 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 984262007295 Helix-turn-helix domain; Region: HTH_18; pfam12833 984262007296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262007297 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 984262007298 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 984262007299 catalytic triad [active] 984262007300 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 984262007301 binding surface 984262007302 TPR motif; other site 984262007303 TPR repeat; Region: TPR_11; pfam13414 984262007304 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 984262007305 TPR motif; other site 984262007306 binding surface 984262007307 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 984262007308 binding surface 984262007309 TPR motif; other site 984262007310 TPR repeat; Region: TPR_11; pfam13414 984262007311 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 984262007312 binding surface 984262007313 TPR motif; other site 984262007314 TPR repeat; Region: TPR_11; pfam13414 984262007315 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 984262007316 binding surface 984262007317 TPR repeat; Region: TPR_11; pfam13414 984262007318 TPR motif; other site 984262007319 TPR repeat; Region: TPR_11; pfam13414 984262007320 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 984262007321 EamA-like transporter family; Region: EamA; pfam00892 984262007322 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 984262007323 ADP-ribose binding site [chemical binding]; other site 984262007324 dimer interface [polypeptide binding]; other site 984262007325 active site 984262007326 nudix motif; other site 984262007327 metal binding site [ion binding]; metal-binding site 984262007328 NAD-dependent deacetylase; Provisional; Region: PRK00481 984262007329 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 984262007330 NAD+ binding site [chemical binding]; other site 984262007331 substrate binding site [chemical binding]; other site 984262007332 Zn binding site [ion binding]; other site 984262007333 Uncharacterized conserved protein [Function unknown]; Region: COG2454 984262007334 Protein of unknown function (DUF962); Region: DUF962; cl01879 984262007335 TspO/MBR family; Region: TspO_MBR; pfam03073 984262007336 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 984262007337 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007338 chromosome segregation protein; Provisional; Region: PRK02224 984262007339 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 984262007340 Peptidase family M48; Region: Peptidase_M48; cl12018 984262007341 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 984262007342 hypothetical protein; Reviewed; Region: PRK09588 984262007343 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 984262007344 Phosphoglycerate kinase; Region: PGK; pfam00162 984262007345 substrate binding site [chemical binding]; other site 984262007346 hinge regions; other site 984262007347 ADP binding site [chemical binding]; other site 984262007348 catalytic site [active] 984262007349 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 984262007350 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 984262007351 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 984262007352 Chain length determinant protein; Region: Wzz; cl15801 984262007353 O-Antigen ligase; Region: Wzy_C; pfam04932 984262007354 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 984262007355 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 984262007356 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 984262007357 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 984262007358 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 984262007359 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 984262007360 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007361 RDD family; Region: RDD; pfam06271 984262007362 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 984262007363 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 984262007364 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984262007365 active site 984262007366 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 984262007367 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 984262007368 TPR motif; other site 984262007369 TPR repeat; Region: TPR_11; pfam13414 984262007370 binding surface 984262007371 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 984262007372 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 984262007373 human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs; Region: 17beta-HSDXI-like_SDR_c; cd05339 984262007374 putative NAD(P) binding site [chemical binding]; other site 984262007375 homodimer interface [polypeptide binding]; other site 984262007376 active site 984262007377 substrate binding site [chemical binding]; other site 984262007378 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 984262007379 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 984262007380 BCCT family transporter; Region: BCCT; pfam02028 984262007381 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 984262007382 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 984262007383 dimerization interface 3.5A [polypeptide binding]; other site 984262007384 active site 984262007385 Arginase family; Region: Arginase; cd09989 984262007386 active site 984262007387 Mn binding site [ion binding]; other site 984262007388 oligomer interface [polypeptide binding]; other site 984262007389 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262007390 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 984262007391 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 984262007392 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 984262007393 metal-binding site [ion binding] 984262007394 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 984262007395 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 984262007396 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 984262007397 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984262007398 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984262007399 active site 984262007400 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 984262007401 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 984262007402 inhibitor-cofactor binding pocket; inhibition site 984262007403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262007404 catalytic residue [active] 984262007405 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007406 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 984262007407 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 984262007408 S-adenosylmethionine binding site [chemical binding]; other site 984262007409 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 984262007410 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262007411 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262007412 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984262007413 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 984262007414 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 984262007415 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 984262007416 protein binding site [polypeptide binding]; other site 984262007417 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 984262007418 Domain interface; other site 984262007419 Peptide binding site; other site 984262007420 Active site tetrad [active] 984262007421 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 984262007422 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 984262007423 Walker A/P-loop; other site 984262007424 ATP binding site [chemical binding]; other site 984262007425 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 984262007426 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 984262007427 ABC transporter signature motif; other site 984262007428 Walker B; other site 984262007429 D-loop; other site 984262007430 H-loop/switch region; other site 984262007431 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 984262007432 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 984262007433 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 984262007434 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 984262007435 PA/protease or protease-like domain interface [polypeptide binding]; other site 984262007436 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 984262007437 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 984262007438 Zn binding site [ion binding]; other site 984262007439 FOG: PKD repeat [General function prediction only]; Region: COG3291 984262007440 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262007441 FOG: PKD repeat [General function prediction only]; Region: COG3291 984262007442 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 984262007443 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007444 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 984262007445 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 984262007446 DNA protecting protein DprA; Region: dprA; TIGR00732 984262007447 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 984262007448 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 984262007449 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 984262007450 active site 984262007451 (T/H)XGH motif; other site 984262007452 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 984262007453 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 984262007454 active site 984262007455 HIGH motif; other site 984262007456 dimer interface [polypeptide binding]; other site 984262007457 KMSKS motif; other site 984262007458 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 984262007459 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 984262007460 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 984262007461 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 984262007462 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 984262007463 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 984262007464 active site 984262007465 dimer interface [polypeptide binding]; other site 984262007466 motif 1; other site 984262007467 motif 2; other site 984262007468 motif 3; other site 984262007469 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 984262007470 anticodon binding site; other site 984262007471 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 984262007472 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 984262007473 active site 984262007474 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 984262007475 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 984262007476 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 984262007477 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 984262007478 Walker A/P-loop; other site 984262007479 ATP binding site [chemical binding]; other site 984262007480 Q-loop/lid; other site 984262007481 ABC transporter signature motif; other site 984262007482 Walker B; other site 984262007483 D-loop; other site 984262007484 H-loop/switch region; other site 984262007485 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 984262007486 putative carbohydrate binding site [chemical binding]; other site 984262007487 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 984262007488 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 984262007489 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 984262007490 active site 984262007491 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 984262007492 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 984262007493 active site 984262007494 dimer interface [polypeptide binding]; other site 984262007495 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 984262007496 Ligand Binding Site [chemical binding]; other site 984262007497 Molecular Tunnel; other site 984262007498 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262007499 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 984262007500 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 984262007501 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262007502 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 984262007503 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984262007504 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 984262007505 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 984262007506 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 984262007507 AAA domain; Region: AAA_21; pfam13304 984262007508 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 984262007509 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 984262007510 TrkA-C domain; Region: TrkA_C; pfam02080 984262007511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984262007512 Coenzyme A binding pocket [chemical binding]; other site 984262007513 TPR repeat; Region: TPR_11; pfam13414 984262007514 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 984262007515 binding surface 984262007516 TPR motif; other site 984262007517 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984262007518 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 984262007519 TPR motif; other site 984262007520 binding surface 984262007521 TPR repeat; Region: TPR_11; pfam13414 984262007522 Predicted transcriptional regulator [Transcription]; Region: COG2378 984262007523 WYL domain; Region: WYL; pfam13280 984262007524 rod shape-determining protein MreB; Provisional; Region: PRK13930 984262007525 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 984262007526 nucleotide binding site [chemical binding]; other site 984262007527 putative NEF/HSP70 interaction site [polypeptide binding]; other site 984262007528 SBD interface [polypeptide binding]; other site 984262007529 TIGR03503 family protein; Region: TIGR03503 984262007530 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984262007531 chaperone protein DnaJ; Provisional; Region: PRK14276 984262007532 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; cl03075 984262007533 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 984262007534 dimer interface [polypeptide binding]; other site 984262007535 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 984262007536 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 984262007537 Competence protein; Region: Competence; pfam03772 984262007538 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 984262007539 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 984262007540 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 984262007541 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984262007542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984262007543 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984262007544 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 984262007545 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 984262007546 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 984262007547 active site 984262007548 substrate binding site [chemical binding]; other site 984262007549 metal binding site [ion binding]; metal-binding site 984262007550 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 984262007551 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 984262007552 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 984262007553 trimer interface [polypeptide binding]; other site 984262007554 active site 984262007555 UDP-GlcNAc binding site [chemical binding]; other site 984262007556 lipid binding site [chemical binding]; lipid-binding site 984262007557 Repair protein; Region: Repair_PSII; pfam04536 984262007558 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 984262007559 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 984262007560 putative transposase OrfB; Reviewed; Region: PHA02517 984262007561 HTH-like domain; Region: HTH_21; pfam13276 984262007562 Integrase core domain; Region: rve; pfam00665 984262007563 Integrase core domain; Region: rve_3; pfam13683 984262007564 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 984262007565 DNA-binding interface [nucleotide binding]; DNA binding site 984262007566 Integrase core domain; Region: rve; pfam00665 984262007567 Imelysin; Region: Peptidase_M75; pfam09375 984262007568 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984262007569 ligand binding site [chemical binding]; other site 984262007570 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984262007571 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 984262007572 active site 984262007573 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 984262007574 NAD(P) binding site [chemical binding]; other site 984262007575 catalytic residues [active] 984262007576 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 984262007577 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 984262007578 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 984262007579 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 984262007580 ATP binding site [chemical binding]; other site 984262007581 putative Mg++ binding site [ion binding]; other site 984262007582 TIGR02646 family protein; Region: TIGR02646 984262007583 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 984262007584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262007585 Walker A/P-loop; other site 984262007586 ATP binding site [chemical binding]; other site 984262007587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984262007588 Walker B; other site 984262007589 D-loop; other site 984262007590 H-loop/switch region; other site 984262007591 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262007592 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 984262007593 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984262007594 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 984262007595 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984262007596 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984262007597 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 984262007598 dimer interface [polypeptide binding]; other site 984262007599 allosteric magnesium binding site [ion binding]; other site 984262007600 active site 984262007601 aspartate-rich active site metal binding site; other site 984262007602 Schiff base residues; other site 984262007603 recombination factor protein RarA; Reviewed; Region: PRK13342 984262007604 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 984262007605 Walker A motif; other site 984262007606 ATP binding site [chemical binding]; other site 984262007607 Walker B motif; other site 984262007608 arginine finger; other site 984262007609 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 984262007610 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 984262007611 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 984262007612 RNA methyltransferase, RsmE family; Region: TIGR00046 984262007613 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 984262007614 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984262007615 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 984262007616 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 984262007617 active site 984262007618 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 984262007619 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 984262007620 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 984262007621 inhibitor-cofactor binding pocket; inhibition site 984262007622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262007623 catalytic residue [active] 984262007624 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 984262007625 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 984262007626 putative trimer interface [polypeptide binding]; other site 984262007627 putative CoA binding site [chemical binding]; other site 984262007628 Predicted peptidase [General function prediction only]; Region: COG4099 984262007629 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984262007630 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 984262007631 S-adenosylmethionine binding site [chemical binding]; other site 984262007632 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 984262007633 active site 984262007634 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 984262007635 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984262007636 Protein of unknown function (DUF458); Region: DUF458; cl00861 984262007637 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 984262007638 active site 984262007639 serine racemase; Region: PLN02970 984262007640 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 984262007641 tetramer interface [polypeptide binding]; other site 984262007642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984262007643 catalytic residue [active] 984262007644 Integrase core domain; Region: rve; pfam00665 984262007645 Integrase core domain; Region: rve_3; pfam13683 984262007646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 984262007647 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 984262007648 tRNA synthetases class I (R); Region: tRNA-synt_1d; pfam00750 984262007649 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984262007650 active site 984262007651 HIGH motif; other site 984262007652 nucleotide binding site [chemical binding]; other site 984262007653 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 984262007654 KMSK motif region; other site 984262007655 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 984262007656 tRNA binding surface [nucleotide binding]; other site 984262007657 anticodon binding site; other site 984262007658 TM2 domain; Region: TM2; pfam05154 984262007659 TM2 domain; Region: TM2; pfam05154 984262007660 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 984262007661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984262007662 NAD(P) binding site [chemical binding]; other site 984262007663 active site 984262007664 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 984262007665 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 984262007666 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007667 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 984262007668 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 984262007669 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 984262007670 active site 984262007671 metal binding site [ion binding]; metal-binding site 984262007672 Predicted permeases [General function prediction only]; Region: COG0795 984262007673 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 984262007674 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 984262007675 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 984262007676 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 984262007677 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 984262007678 active site 984262007679 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 984262007680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984262007681 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 984262007682 DNA binding residues [nucleotide binding] 984262007683 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984262007684 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 984262007685 S-adenosylmethionine binding site [chemical binding]; other site 984262007686 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 984262007687 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 984262007688 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 984262007689 active site 984262007690 metal binding site [ion binding]; metal-binding site 984262007691 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 984262007692 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 984262007693 C-terminal peptidase (prc); Region: prc; TIGR00225 984262007694 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 984262007695 protein binding site [polypeptide binding]; other site 984262007696 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 984262007697 Catalytic dyad [active] 984262007698 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 984262007699 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 984262007700 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 984262007701 putative DNA binding site [nucleotide binding]; other site 984262007702 putative Zn2+ binding site [ion binding]; other site 984262007703 AsnC family; Region: AsnC_trans_reg; pfam01037 984262007704 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 984262007705 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 984262007706 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 984262007707 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 984262007708 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 984262007709 Part of AAA domain; Region: AAA_19; pfam13245 984262007710 Family description; Region: UvrD_C_2; pfam13538 984262007711 von Willebrand factor type A domain; Region: VWA_2; pfam13519 984262007712 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262007713 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 984262007714 binding surface 984262007715 TPR motif; other site 984262007716 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984262007717 CHAT domain; Region: CHAT; pfam12770 984262007718 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 984262007719 heterodimerization interface [polypeptide binding]; other site 984262007720 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 984262007721 heterodimerization interface [polypeptide binding]; other site 984262007722 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 984262007723 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 984262007724 peroxiredoxin; Provisional; Region: PRK13189 984262007725 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 984262007726 dimer interface [polypeptide binding]; other site 984262007727 decamer (pentamer of dimers) interface [polypeptide binding]; other site 984262007728 catalytic triad [active] 984262007729 Putative cyclase; Region: Cyclase; pfam04199 984262007730 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 984262007731 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 984262007732 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 984262007733 active site 984262007734 metal binding site [ion binding]; metal-binding site